High prevalence of multidrug-tolerant bacteria and associated antimicrobial resistance genes isolated from ornamental fish and their carriage water. by David W Verner-Jeffreys, Timothy J Welch, Tamar Schwarz, Michelle J Pond, Martin J Woodward, Sarah J Haig, Georgina S E Rimmer, Edward Roberts, Victoria Morrison, Craig Baker-Austin

“…<h4>Methodology/principal findings</h4>To assess the potential effects of this sustained selection pressure, 127 Aeromonas spp. isolated from warm and cold water ornamental fish species were screened for tolerance to 34 antimicrobials. …”
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Apoptosis-associated genetic mechanisms in the transition from rheumatoid arthritis to osteoporosis: A bioinformatics and functional analysis approach by Hao-Ju Lo, Chun-Hao Tsai, Tsan-Wen Huang

“…This study explores the mechanisms of glucocorticoid-induced osteoporosis (OP) and Rheumatoid arthritis (RA), focusing on apoptosis and its role in the progression from RA to OP. Using microarray data from the GEO database, differential gene expression analysis was conducted with the limma package, identifying significant genes in RA and OP. …”
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SMART: unique splitting-while-merging framework for gene clustering. by Rui Fa, David J Roberts, Asoke K Nandi

“…Moreover, two real microarray gene expression datasets are studied using this approach. …”
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Diagnosis of Coronary Heart Diseases Using Gene Expression Profiling; Stable Coronary Artery Disease, Cardiac Ischemia with and without Myocardial Necrosis. by Nabila Kazmi, Tom R Gaunt

“…Interestingly it also showed efficacy in discriminating myocardial infarction patients from patients with clinical symptoms of cardiac ischemia but no myocardial necrosis or stable coronary artery disease, despite the influence of batch effects and different microarray gene chips and platforms.…”
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Noninvasive prediction of fetal growth restriction using maternal plasma cell-free RNA: a case-control study by Yihong Huang, Ruizhi Wang, Lixia Shen, Lingyi Kong, Peisong Chen, Zilian Wang, Zhuyu Li

“…The least absolute shrinkage and selection operator regression was used to select the hub genes from the cell-free RNA DEGs. …”
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Penaeus vannamei Genetic Evaluation for Growth and Survival Traits During White Spot Syndrome Virus Infection Based on 55K SNP Chip by Yijing HE, Mianyu LIU, Sheng LUAN, Jie KONG, Xupeng LI, Baoxiang CAO, Kun LUO, Jian TAN, Jiawang CAO, Ping DAI, Guangfeng QIANG, Zhaoxin WANG, Juan SUI, Xianhong MENG

“…Based on the survival time of individual resistance to WSSV within the family line, 590 individuals were uniformly selected and typed using 55K SNP liquid-phase microarrays to obtain genotypic data for certain individuals. …”
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Interpretable graph Kolmogorov–Arnold networks for multi-cancer classification and biomarker identification using multi-omics data by Fadi Alharbi, Nishant Budhiraja, Aleksandar Vakanski, Boyu Zhang, Murtada K. Elbashir, Harshith Guduru, Mohanad Mohammed

“…The proposed approach combines differential gene expression with DESeq2, Linear Models for Microarray (LIMMA), and Least Absolute Shrinkage and Selection Operator (LASSO) regression to reduce multi-omics data dimensionality while preserving relevant biological features. …”
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MOLECULAR AND GENETIC INSIGHTS OF ROOT-KNOT NEMATODES PATHOGENICITY: A REVIEW by Prabina Bhandari, Anjali Thapa, Anusha Ghimire, Sunil Ojha, Srijana Saud, Sanju Aryal

“…Protein analysis and molecular databases help identify down-regulated and up-regulated genes. Microarray technology can provide large-scale gene expression data on plant-nematode interaction, aiding in understanding nematode selection and feeding site alteration, thereby identifying genes controlling cell differentiation and division. …”
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Analytic approaches to clinical validation of results from preclinical models of glioblastoma: A systematic review. by Beth Fitt, Grace Loy, Edward Christopher, Paul M Brennan, Michael Tin Chung Poon

“…In 14 studies published between 2017 and 2020 using TCGA RNA microarray data that should have the same cohort, the median number of patients was 464.5 (interquartile range 220.5-525). …”
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miR-4780 Derived from N2-Like Neutrophil Exosome Aggravates Epithelial-Mesenchymal Transition and Angiogenesis in Colorectal Cancer by Liang Wang, Yuqiang Shan, Sixin Zheng, Jiangtao Li, Peng Cui

“…Differentially expressed miRNA in neutrophil exosomes have been sequenced by microarray profile, and the effect of N2-like neutrophil-derived exosomal miR-4780 on epithelial-mesenchymal transition (EMT) and angiogenesis was investigated. …”
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Enhancing Binary Classification Performance in Biomedical Datasets: Regularized ELM with SMOTE and Quantile Transforms Focused on Breast Cancer Analysis by Brilliant Friezka Aina, Meta Kallista, Ig. Prasetya Dwi Wibawa, Ginaldi Ari Nugroho, Ivana Meiska, Syifa Melinda Naf’an

“…Using microarray datasets, this research investigation addresses the problem of unbalanced data in binary classification tasks. …”
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DNA Methylation Profiles of Blood Cells Are Distinct between Early-Onset Obese and Control Individuals by Je-Keun Rhee, Jin-Hee Lee, Hae Kyung Yang, Tae-Min Kim, Kun-Ho Yoon

“…Here, we performed microarray-based DNA methylation and gene expression profiling of peripheral white blood cells obtained from six young, obese individuals and six healthy controls. …”
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Fetal medicine and current practice of prenatal screening by Akshatha Prabhu

“…The fetal sample is used for various genetic tests, such as chromosome microarray analysis (CMA), targeted clinical exome sequencing (CES), or whole exome sequencing (WES) depending upon the abnormality noted or the suspected genetic condition. …”
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Antibiotic resistance in agroecosystem: Progress and challenges by ZHANG Yusen, YE Jun, SU Jianqiang

“…Both culture-dependent and culture-independent technologies, including metagenomic, microarray and high-throughput quantitative polymerase chain reaction have been utilized in the characterization of ARGs in agroecosystem, and each has its strength and weakness. …”
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Exploration of the shared pathways and common biomarkers in cervical and ovarian cancer using integrated bioinformatics analysis by Fang Liu, Min Wang, Tian Zhu, Cong Xu, Guangming Wang

“…Abstract Objective Searching for potential biomarkers and therapeutic targets for early diagnosis of gynecological tumors to improve patient survival. Methods Microarray datasets of cervical cancer (CC) and ovarian cancer (OC) were downloaded from the Gene Expression Omnibus (GEO) database, then, differential gene expression between cancerous and normal tissues in the datasets was analyzed. …”
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The significance of long chain non-coding RNA signature genes in the diagnosis and management of sepsis patients, and the development of a prediction model by Yong Bai, Jing Gao, Yuwen Yan, Xu Zhao

“…The purpose of this study was to determine the value of Long chain non-coding RNA (LncRNA) RP3_508I15.21, RP11_295G20.2, and LDLRAD4_AS1 in the diagnosis of adult sepsis patients and to develop a Nomogram prediction model.MethodsWe screened adult sepsis microarray datasets GSE57065 and GSE95233 from the GEO database and performed differentially expressed genes (DEGs), weighted gene co-expression network analysis (WGCNA), and machine learning methods to find the genes by random forest (Random Forest), least absolute shrinkage and selection operator (LASSO), and support vector machine (SVM), respectively, with GSE95233 as the training set and GSE57065 as the validation set. …”
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Immune-related gene characterization and biological mechanisms in major depressive disorder revealed based on transcriptomics and network pharmacology by Shasha Wu, Shasha Wu, Qing Jiang, Jinhui Wang, Jinhui Wang, Daming Wu, Yan Ren

“…Subsequently, gene ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), Cytoscape plugin CluGO, and Gene Set Enrichment Analysis (GSEA) were utilized to identify immune-related genes. The final selection of immune-related hub genes was determined through the least absolute shrinkage and selection operator (Lasso) regression analysis and PPI analysis. …”
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Characterization of Human Knee and Chin Adipose-Derived Stromal Cells by Magali Kouidhi, Phi Villageois, Carine M. Mounier, Corinne Ménigot, Yves Rival, David Piwnica, Jérôme Aubert, Bérengère Chignon-Sicard, Christian Dani

“…Paired chin and knee fat depots were harvested from 11 subjects and gene expression profiles were determined by DNA microarray analyses. Adipose-derived stromal cells (ASCs) from both sites were isolated and analyzed for their capacity to proliferate, form clones, and differentiate. …”
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Integrative Bioinformatics Analysis Unravel the Association between Intracerebral Hemorrhage and Cellular Apoptosis through Immune Infiltration by Pandi Chen, Gengfan Ye, Jia Li, Kuan Feng, Guangyao Zhu, Maosong Chen, Wei Chen

“…Key genes were identified through least absolute shrinkage and selection operator regression after model validation. …”
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Genome-wide and rna-seq highlight genetic characteristics of rumpless signals in piao chicken by Wang Mei QI, Xing Fu ZHANG, Li Wen SONG, Zai Xia LIU, Yuan CHAI, Yan Yong SUN

“…Understanding the genetic relationship between rumpless chicken and other specific selection target breeds in the process of differentiation of the rumpless signal genes is helpful to reveal the genetic basis of rumplessnesss. …”
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