Prognostic value of gene signatures and proliferation in lymph-node-negative breast cancer. by Kristin Jonsdottir, Jörg Assmus, Aida Slewa, Einar Gudlaugsson, Ivar Skaland, Jan P A Baak, Emiel A M Janssen

“…<h4>Methods</h4>Illumina WG6 mRNA microarray analysis was used to examine 94 fresh-frozen tumour samples from node-negative breast cancer patients. …”
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Experimental study on the role and biomarker potential of CX3CR1 in osteoarthritis by Junpu Huang, Xifan Zheng, Jinzhi Meng, Hongtao Wang, Lingyun Chen, Jun Yao

“…This study aimed to identify OA-associated genes and elucidate the molecular pathways implicated, with the goal of discovering reliable diagnostic biomarkers.Methods The microarray dataset was retrieved from the Gene Expression Omnibus (GEO) and analyzed using R software to identify the signature gene, CX3CR1. …”
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Interleukin-27-induced HIV-resistant dendritic cells suppress reveres transcription following virus entry in an SPTBN1, autophagy, and YB-1 independent manner. by Tomozumi Imamichi, Qian Chen, Bharatwaj Sowrirajan, Jun Yang, Sylvain Laverdure, Mayra Marquez, Anthony R Mele, Catherine Watkins, Joseph W Adelsberger, Jeanette Higgins, Hongyan Sui

“…An HIV proviral DNA copy number assay displayed that 27DC suppressed reverse transcriptase (RT) reaction without influencing the virus entry. A DNA microarray analysis was performed to identify the differentially expressed genes between 27DC and iDC. …”
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Unveiling the role of oxidative stress in ANCA-associated glomerulonephritis through integrated machine learning and bioinformatics analyses by Liyuan Xie, Xianying Qiu, Junya Jia, Tiekun Yan, Pengcheng Xu

“…In the current study, we obtained differentially expressed genes from AAGN-related microarray datasets in the Gene Expression Omnibus database, and oxidative stress-related genes (OSRGs) from the GeneCards and Gene Ontology databases to identify differentially expressed OSRGs. …”
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Inference of cell type content from human brain transcriptomic datasets illuminates the effects of age, manner of death, dissection, and psychiatric diagnosis. by Megan Hastings Hagenauer, Anton Schulmann, Jun Z Li, Marquis P Vawter, David M Walsh, Robert C Thompson, Cortney A Turner, William E Bunney, Richard M Myers, Jack D Barchas, Alan F Schatzberg, Stanley J Watson, Huda Akil

“…Using this database, we predicted the relative cell type content for 833 human cortical samples using microarray or RNA-Seq data from the Pritzker Consortium (GSE92538) or publicly-available databases (GSE53987, GSE21935, GSE21138, CommonMind Consortium). …”
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Identification and Validation of Aging-Related Genes in IgA Nephropathy in the Asian Population by Shu J, Li H, Li H

“…The purpose of this study was to identify and verify aging-related genes associated with IgAN through bioinformatics analysis.Methods: Microarray datasets of GSE93798 and GSE37460 were downloaded from the Gene Expression Omnibus (GEO) database. …”
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CircN4bp1 Facilitates Sepsis-Induced Acute Respiratory Distress Syndrome through Mediating Macrophage Polarization via the miR-138-5p/EZH2 Axis by Dongyang Zhao, Chunxue Wang, Xiandong Liu, Na Liu, Shougang Zhuang, Qianqian Zhang, Xiaowei Bao, Shumin Xu, Xiaohui Zhou, Qinshu Meng, Shao Li, Lunxian Tang

“…We recently reported the differential circRNA expression patterns of the pulmonary macrophages in sepsis-induced acute respiratory distress syndrome (ARDS) mice model by microarray analysis. However, their function and hidden molecular mechanism in regulation of macrophage activation and inflammation remain poorly understood. …”
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RTP4, a Biomarker Associated with Diagnosing Pulmonary Tuberculosis and Pan-Cancer Analysis by Hao Li, Qin Zhou, ZhiXiang Ding, QingHai Wang

“…Pulmonary tuberculosis (PTB) is a global epidemic of infectious disease; the purpose of our study was to explore new potential biomarkers for the diagnosis of pulmonary tuberculosis and to use the biomarkers for further pan-cancer analysis. Methods. Four microarray gene expression sets were downloaded from the GEO public databases and conducted for further analysis. …”
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Case report: dual diagnosis of Mulibrey nanism and Jacobs syndrome in an Indian boy by Pritti Kumari, Rohina Aggarwal, Akshi Valodara, Hetvi Patel, Dipak Dhoriya, Ankita Suthar, Somesh Aggarwal

“…Comprehensive genetic analysis of the proband was conducted using both classical and modern techniques, including karyotyping, chromosomal microarray (CMA), and whole exome sequencing (WES). …”
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The expression and prognostic value of stem cell markers Bmi-1, HESC5:3, and HES77 in human papillomavirus–positive and –negative oropharyngeal squamous cell carcinoma by Hesham Mohamed, Jaana Hagström, Lauri Jouhi, Timo Atula, Alhadi Almangush, Antti Mäkitie, Caj Haglund

“…Our cohort comprised 202 consecutive oropharyngeal squamous cell carcinoma patients diagnosed and treated with curative intent. We used tissue microarray tumor blocks to study the immunohistochemical expression of Bmi-1, HESC5:3, and HES77. …”
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Citrus flavonoids for overcoming breast cancer resistance to methotrexate: identification of potential targets of nobiletin and sinensetin by Adam Hermawan, Naufa Hanif, Dyaningtyas Dewi Pamungkas Putri, Nurul Fatimah, Heri Himawan Prasetio

“…Protein targets of citrus flavonoids were identified from multiple databases and were collected using Venny 2.1. Microarray data of MCF-7 and MCF-7/MTX cells were acquired from the Gene Expression Omnibus. …”
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Exploring the association between osteoporosis and kidney stones: a clinical to mechanistic translational study based on big data and bioinformatics by Di Luo, Linguo Xie, Jingdong Zhang, Chunyu Liu

“…Gene expression data from the Gene Expression Omnibus (GEO) microarray database were integrated with machine learning techniques to identify key genes involved in both osteoporosis and kidney stones. …”
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Integrating single-cell RNA sequencing, WGCNA, and machine learning to identify key biomarkers in hepatocellular carcinoma by Gang Wang, Jiaxing Zhang, Yirong Li, Yuyu Zhang, Weiwei Dong, Hengquan Wu, Jinglan Wang, Peiqing Liao, Ziqiang Yuan, Tao Liu, Wenting He

“…Abstract The microarray and single-cell RNA-sequencing (scRNA-seq) datasets of hepatocellular carcinoma (HCC) were downloaded from the Gene Expression Omnibus (GEO) database. …”
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Dynamic PAH-Related Changes: A Dataset of tRNA-Derived Small RNA Transcriptome Across Multiple Organs by Yusi Chen, Yi Tang, Tengteng Zhu, Fang Li, Jun Luo, Jingyuan Chen, Yingjie Tan, Tianyu Wang, Jianqiang Peng, Gang Jiang, Jiang Li

“…We collected plasma samples from PAH patients and healthy controls for small RNA microarray, and we established a monocrotaline-induced PAH rat model to collect right ventricular and lung tissues for tsRNA sequencing. …”
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CaGe: A Web-Based Cancer Gene Annotation System for Cancer Genomics by Young-Kyu Park, Tae-Wook Kang, Su-Jin Baek, Kwon-Il Kim, Seon-Young Kim, Doheon Lee, Yong Sung Kim

“…High-throughput genomic technologies (HGTs), including next-generation DNA sequencing (NGS), microarray, and serial analysis of gene expression (SAGE), have become effective experimental tools for cancer genomics to identify cancer-associated somatic genomic alterations and genes. …”
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Comparison of Early Changes in Ocular Surface and Inflammatory Mediators between Femtosecond Lenticule Extraction and Small-Incision Lenticule Extraction. by Chi Zhang, Hui Ding, Miao He, Lina Liu, Liangping Liu, Gang Li, Bing Niu, Xingwu Zhong

“…Concentrations of interleukin-1α (IL-1α), tumor necrosis factor-α (TNF-α), nerve growth factor (NGF), interferon-γ (IFN-γ), transforming growth factor-β1 (TGF-β1) and matrix metalloproteinase-9 (MMP-9) in collected tears were measured by multiplex antibody microarray.<h4>Results</h4>Central corneal sensitivity was reduced in both groups, but the scores in the SMILE group were higher than those in the FLEx group at all time points postoperatively (P<0.01). …”
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Population genetic analysis of Aedes aegypti reveals evidence of emerging admixture populations in coastal Kenya. by Francis Mulwa, Dario Balcazar, Solomon Langat, James Mutisya, Betty Chelangat, Carolyn S McBride, Noah Rose, Jeffrey Powell, Rosemary Sang, Armanda Bastos, Andrea Gloria-Soria, Joel Lutomiah

“…Aedes aegypti population structure, genetic diversity, and isolation by distance were analyzed using genome-wide single nucleotide polymorphism (SNPs) datasets generated with an Ae. aegypti microarray chip targeting ≈50,000 SNPs. Kenyan Aedes aegypti populations were placed into a global context within a phylogenetic tree, by combining the Kenyan dataset with a previously published global database.…”
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miR-142-5p as a CXCR4-Targeted MicroRNA Attenuates SDF-1-Induced Chondrocyte Apoptosis and Cartilage Degradation via Inactivating MAPK Signaling Pathway by Yaoyv Xiang, Yanlin Li, Lingjian Yang, Yinghong He, Di Jia, Xidan Hu

“…Here, through miRNAs microarray and bioinformatics analyses, we identified miR-142-5p as a CXCR4-targeted and dramatically downregulated miRNA in cartilage from OA patients, as well as in SDF-1-induced OA chondrocytes in vitro. …”
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Role of discoidin domain receptor 2 (DDR2) and microRNA-182 in survival of women with high-grade serous ovarian cancer by Susana Ramalho, Liliana AL De Angelo Andrade, Cássio Cardoso Filho, Rodrigo de Andrade Natal, Marina Pavanello, Amanda Canato Ferracini, Luis Felipe Sallum, Luis Otávio Sarian, Sophie Derchain

“…DDR2 expression was assessed using immunohistochemistry on tissue microarray slides. The microRNAs were evaluated by qRT-PCR. …”
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Integrated Genome-Wide Analysis of Gene Expression and DNA Copy Number Variations Highlights Stem Cell-Related Pathways in Small Cell Esophageal Carcinoma by Di Liu, Xinyan Xu, Junmiao Wen, Liyi Xie, Junhua Zhang, Yuxin Shen, Guoliang Jiang, Jiayan Chen, Min Fan

“…High-quality DNA and total RNA were first extracted from both SCEC and normal tissues. Microarray data showed significant upregulation in WNT gene sets and downregulation in the PTEN and notch gene sets in SCEC. …”
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