The Differential Gene Expression Pattern of Mycobacterium tuberculosis in Response to Capreomycin and PA-824 versus First-Line TB Drugs Reveals Stress- and PE/PPE-Related Drug Targ... by Li M. Fu, Shu C. Tai

“…Six among the 42 genes identified in this study are on the list of the top 100 persistence targets selected by the TB Structural Genomics Consortium. …”
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Identification and validation of diagnostic genes IFI44 and IRF9 in insomnia-associated autoimmune uveitis by Chao Wu, Hui Feng, Meng Tian, Baorui Chu, Xianyang Liu, Shuhao Zeng, Yakun Wang, Hong Wang, Shengping Hou, Qingfeng Liang

“…We investigated insomnia-associated genes that may contribute to AU pathogenesis and sought to identify potential biomarkers for insomnia-associated AU.MethodsMicroarray data related to insomnia and AU were downloaded from the Gene Expression Omnibus (GEO) database and analyzed. …”
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Diverse regulated cell death patterns and immune traits in kidney allograft with fibrosis: a prediction of renal allograft failure based on machine learning, single-nucleus RNA seq... by Yuqing Li, Jiandong Zhang, Xuemeng Qiu, Yifei Zhang, Jiyue Wu, Qing Bi, Zejia Sun, Wei Wang

“…However, the role of different regulated cell death (RCD) pathways in post-transplant allograft fibrosis remains unclear.Methods and Results: Microarray transcriptome profiling and single-nuclei sequencing data of post-transplant fibrotic and normal grafts were obtained and used to identify RCD-related differentially expressed genes. …”
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The potential crosstalk genes and molecular mechanisms between systemic lupus erythematosus and periodontitis by Kai Zhao, Xiaolong Li, Qingmiao Zhu, Mengyu Zhu, Jinge Huang, Ting Zhao

“…Random forest (RF) and Least Absolute Shrinkage and Selection Operator (Lasso) regression were employed to identify key hub genes. …”
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Reprogramming‐derived gene cocktail increases cardiomyocyte proliferation for heart regeneration by Yuan‐Yuan Cheng, Yu‐Ting Yan, David J Lundy, Annie HA Lo, Yu‐Ping Wang, Shu‐Chian Ruan, Po‐Ju Lin, Patrick CH Hsieh

“…Several candidate genes were selected and tested for their ability to induce CM proliferation. …”
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Comparing gene-gene co-expression network approaches for the analysis of cell differentiation and specification on scRNAseq data by Alisa Pavel, Manja Gersholm Grønberg, Line H. Clemmensen

“…Gene-gene co-expression network analysis has been widely applied to bulk RNA sequencing and microarray data to investigate different phenotypes and compound exposures. …”
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Infection of Human Coronary Artery Endothelial Cells by Group B Streptococcus Contributes to Dysregulation of Apoptosis, Hemostasis, and Innate Immune Responses by Claudia Beyrich, Jürgen Löffler, Anna Kobsar, Christian P. Speer, Susanne Kneitz, Martin Eigenthaler

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Tissue-restricted expression of Nrf2 and its target genes in zebrafish with gene-specific variations in the induction profiles. by Hitomi Nakajima, Yaeko Nakajima-Takagi, Tadayuki Tsujita, Shin-Ichi Akiyama, Takeshi Wakasa, Katsuki Mukaigasa, Hiroshi Kaneko, Yutaka Tamaru, Masayuki Yamamoto, Makoto Kobayashi

“…Seven zebrafish genes (gstp1, mgst3b, prdx1, frrs1c, fthl, gclc and hmox1a) suitable for WISH analysis were selected from candidates for Nrf2 targets identified by microarray analysis. …”
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Inferring pathway activity toward precise disease classification. by Eunjung Lee, Han-Yu Chuang, Jong-Won Kim, Trey Ideker, Doheon Lee

“…The advent of microarray technology has made it possible to classify disease states based on gene expression profiles of patients. …”
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Prevalence and characteristics of Livestock-Associated Methicillin-Resistant Staphylococcus aureus (LA-MRSA) isolated from chicken meat in the province of Quebec, Canada. by Jocelyn Bernier-Lachance, Julie Arsenault, Valentine Usongo, Éric Parent, Josée Labrie, Mario Jacques, François Malouin, Marie Archambault

“…A total of 309 chicken drumsticks and thighs were randomly selected in 2013 from 43 retail stores in the Monteregie. …”
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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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Expression profiles and bioinformatic analysis of circular RNA in rheumatic heart disease: potential hsa_circ_0001490 and hsa_circ_0001296 as a diagnostic biomarker by Xiaoliang Chen, Lina Chen, Li Bi, Shunying Zhao, Xiaoyan Hu, Ni Li, Linwen Zhu, Guofeng Shao

“…The Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment analyses were conducted to predict the potential functions of the differentially expressed genes and RHD-related pathways.ResultsFour circRNAs were selected from circRNA microarray data. qRT-PCR confirmed that hsa_circ_0001490 and hsa_circ_0001296 were significantly upregulated in RHD plasma (4.28-fold, P < 0.001; 5.24-fold, P < 0.001, respectively). …”
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CD155 blockade enhances allogeneic natural killer cell-mediated antitumor response against osteosarcoma by Lei Shi, Christian M Capitini, Amy K Erbe, Fernanda Szewc, Longzhen Song, Matthew H Forsberg, David P Turicek, Paul D Bates, Devin M Burpee, Aicha E Quamine, Johnathan D Ebben, Jillian M Kline, Emily O Lafeber, Madison F Phillips, Monica M Cho, Amanda S Ceas, John A Kink

“…Mice bearing pulmonary OS metastases underwent alloBMT and alloNK cell infusion with anti-CD155 either before or after tumor induction, with select groups receiving anti-DNAM-1 pretreated alloNK cells. …”
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A Synopsis of Serum Biomarkers in Cutaneous Melanoma Patients by Pierre Vereecken, Frank Cornelis, Nicolas Van Baren, Valérie Vandersleyen, Jean-François Baurain

“…However, the poor sensitivity and specificity of those markers and many other molecules are serious limitations for their routine use in both early (AJCC stage I and II) and advanced stages of melanoma (AJCC stage III and IV). Microarray technology and proteomic research will surely provide new candidates in the near future allowing more accurate definition of the individual prognosis and prediction of the therapeutic outcome and select patients for early adjuvant strategies.…”
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Maternal bisphenol a exposure impacts the fetal heart transcriptome. by Kalyan C Chapalamadugu, Catherine A Vandevoort, Matthew L Settles, Barrie D Robison, Gordon K Murdoch

“…At the end of treatment, fetal heart tissues were collected and chamber specific transcriptome expression was assessed using genome-wide microarray. Quantitative real-time PCR was conducted on select genes and ventricular tissue glycogen content was quantified. …”
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Identification and validation of TSPAN13 as a novel temozolomide resistance-related gene prognostic biomarker in glioblastoma. by Haofei Wang, Zhen Liu, Zesheng Peng, Peng Lv, Peng Fu, Xiaobing Jiang

“…Using LASSO Cox analysis, we selected 12 TMZR-RDEGs to construct a risk score model, which was evaluated for performance through survival analysis, time-dependent ROC, and stratified analyses. …”
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Weighted frequent gene co-expression network mining to identify genes involved in genome stability. by Jie Zhang, Kewei Lu, Yang Xiang, Muhtadi Islam, Shweta Kotian, Zeina Kais, Cindy Lee, Mansi Arora, Hui-Wen Liu, Jeffrey D Parvin, Kun Huang

“…In this study, we used a network mining algorithm to identify tightly connected gene co-expression networks that are frequently present in microarray datasets from 33 types of cancer which were derived from 16 organs/tissues. …”
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Have maternal or paternal ages any impact on the prenatal incidence of genomic copy number variants associated with fetal structural anomalies? by Marta Larroya, Marta Tortajada, Eduard Mensión, Montse Pauta, Laia Rodriguez-Revenga, Antoni Borrell

“…We conducted a non-paired case-control study (1:2 ratio) among pregnancies undergoing chromosomal microarray analysis (CMA) because of fetal ultrasound anomalies, from December 2012 to May 2020. …”
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Identification of the Exercise and Time Effects on Human Skeletal Muscle through Bioinformatics Methods by Mufang Feng, Jie Ji, Xiaoliu Li, Xinming Ye

“…To determine the effects of exercise and time on human skeletal muscle, we downloaded the microarray expression profile of GSE1832 and analyzed it to select differentially expressed genes (DEGs). …”
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Cuproptosis genes in predicting the occurrence of allergic rhinitis and pharmacological treatment. by Ting Yi

“…<h4>Results</h4>Four AR signature genes (MRPS30, CLPX, MRPL13, and MRPL53) were selected by the MCC, EPC, BottleNeck, and Closeness algorithms. …”
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