Poly-β-D-(1,6)-N-acetyl-glucosamine (PNAG) glycan vaccines with broad spectrum neutralizing activities by Kuo-Shiang Liao, Mu-Rong Kao, Tzu-Hsuan Ma, Mei-Hua Hsu, Tzu-Yin Chen, Balázs Imre, Philip J. Harris, Jiun-Jie Shie, Cheng-Hsun Chiu, Chung-Yi Wu, Yves S. Y. Hsieh

“…Here, we describe an effective n + 2 glycosylation strategy enabling controlled synthesis of partially (dPNAG) and fully deacetylated PNAG glycans. Glycan microarray analysis shows that dPNAG glycans with DP8 and DP12 are optimal, with corresponding protein conjugates eliciting the highest IgG titers. …”
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Transcriptomic Characterization Reveals Mitochondrial Involvement in Nrf2/Keap1-Mediated Osteoclastogenesis by Eiko Sakai, Takayuki Tsukuba

“…To further elucidate the function of Nrf2/Keap1-mediated oxidative stress regulation in osteoclastogenesis, DNA microarray analysis was conducted in this study using wild-type (WT), <i>Keap1</i> knockout (<i>Keap1</i> KO), and <i>Nrf2</i> knockout (<i>Nrf2</i> KO) osteoclasts. …”
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Recombination and its impact on the genome of the haplodiploid parasitoid wasp Nasonia. by Oliver Niehuis, Joshua D Gibson, Michael S Rosenberg, Bart A Pannebakker, Tosca Koevoets, Andrea K Judson, Christopher A Desjardins, Kathleen Kennedy, David Duggan, Leo W Beukeboom, Louis van de Zande, David M Shuker, John H Werren, Jürgen Gadau

“…Utilizing single-nucleotide polymorphisms (SNPs) between two Nasonia parasitoid wasp genomes, we developed a SNP genotyping microarray to infer a high-density linkage map for Nasonia. …”
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Exploration of the shared gene signatures and molecular mechanisms between cardioembolic stroke and ischemic stroke by Xuan Wang, Xuan Wang, Xueyuan Liu, Xueyuan Liu

“…IntroductionThis study aimed to investigate the shared molecular mechanisms underlying cardioembolic stroke (CS) and ischemic stroke (IS) using integrated bioinformatics analysis.MethodsMicroarray datasets for the CS (GSE58294, blood samples from CS and controls) and IS (GSE16561, blood from IS and controls; GSE22255, peripheral blood mononuclear cells from IS and matched controls) were acquired from the Gene Expression Omnibus database. …”
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Increased Expression of Long Noncoding RNA LOC100506314 in T cells from Patients with Nonsegmental Vitiligo and Its Contribution to Vitiligo Pathogenesis by Ning-Sheng Lai, Hui-Chun Yu, Hsien-Bin Huang, Hsien-Yu Huang Tseng, Ming-Chi Lu

“…This study aimed to identify the abnormal expression of long noncoding RNAs (lncRNAs) in T cells from patients with vitiligo and to investigate their functional roles in the immune system. Using microarray analysis, the expression levels of RNA transcripts in T cells from patients with vitiligo and controls were compared. …”
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Differential expression of prognostic proteomic markers in primary tumour, venous tumour thrombus and metastatic renal cell cancer tissue and correlation with patient outcome. by Alexander Laird, Fiach C O'Mahony, Jyoti Nanda, Antony C P Riddick, Marie O'Donnell, David J Harrison, Grant D Stewart

“…As such, in this study a tissue microarray from 177 patients with primary renal tumour, renal vein tumour thrombus and/or RCC metastasis has been created and used with Automated Quantitative Analysis (AQUA) of immunofluorescence to study the prognostic significance of these markers in locally advanced and metastatic disease. …”
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Methylomics of breast cancer: Seeking epimarkers in peripheral blood of young subjects by Golnaz Khakpour, Mehrdad Noruzinia, Pantea Izadi, Fatemeh Karami, Mohammad Ahmadvand, Ramin Heshmat, Mahsa M Amoli, Javad Tavakkoly-Bazzaz

“…In this way, methylated DNA immunoprecipitation microarray (MeDIP-chip) was performed on DNA samples isolated from white blood cells of 30 breast cancer patients compared to 30 healthy controls. …”
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Methylation-based smoking signatures in blood and tissue samples for the prediction of self-reported smoking status and mortality in patients with colorectal cancer by Tanwei Yuan, Katrin E. Tagscherer, Wilfried Roth, Melanie Bewerunge-Hudler, Alexander Brobeil, Matthias Kloor, Hendrik Bläker, Hermann Brenner, Michael Hoffmeister

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Emerging Target Discovery Strategies Drive the Decoding of Therapeutic Power of Natural Products and Further Drug Development: A Case Study of Celastrol by Yanbei Tu, Guiyu Dai, Yanyan Chen, Lihua Tan, Hanqing Liu, Meiwan Chen

“…Herein, diverse target discovery strategies are overviewed for the pharmacological and toxicological studies of CEL, including chemical proteomics, protein microarray, degradation‐based protein profiling, proteome‐wide label‐free approaches, network pharmacology, target‐based drug screening, multi‐omics analysis, and hypothesis‐driven target confirmation. …”
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Brain-specific rescue of Clock reveals system-driven transcriptional rhythms in peripheral tissue. by Michael E Hughes, Hee-Kyung Hong, Jason L Chong, Alejandra A Indacochea, Samuel S Lee, Michael Han, Joseph S Takahashi, John B Hogenesch

“…Rescued mice showed normal locomotor rhythms in constant darkness, with activity period lengths approximating wildtype controls. We used microarray analysis to assess whether brain-specific rescue of circadian rhythmicity was sufficient to restore circadian transcriptional output in the liver. …”
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Analysis of DNA methylation changes following Cfp1 knockout in mouse spermatocytes by Chanhyeok Park, Youngsok Choi, Seonho Yoo, Hyeonwoo La, Kwonho Hong

“…Promoter methylation changes were integrated with publicly available microarray and ChIP-seq data to identify genes regulated by CFP1. …”
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Genetic Comparison and Selection of Reproductive and Growth-Related Traits in Qinchuan Cattle and Two Belgian Cattle Breeds by Xiaopeng Li, Peng Niu, Xueyan Wang, Fei Huang, Jieru Wang, Huimin Qu, Chunmei Han, Qinghua Gao

“…A total of 270 Belgian cattle (91 BR and 179 BWR) and 286 Qinchuan cattle were genotyped using the Illumina Bovine SNP 50K microarray. Data analysis was conducted using PLINK and Beagle 5.1 to estimate linkage disequilibrium (LD) and effective population size (Ne). …”
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An immunomics approach to schistosome antigen discovery: antibody signatures of naturally resistant and chronically infected individuals from endemic areas. by Soraya Gaze, Patrick Driguez, Mark S Pearson, Tiago Mendes, Denise L Doolan, Angela Trieu, Donald P McManus, Geoffrey N Gobert, Maria Victoria Periago, Rodrigo Correa Oliveira, Fernanda C Cardoso, Guilherme Oliveira, Guilherme Oliveira, Rie Nakajima, Al Jasinskas, Chris Hung, Li Liang, Jozelyn Pablo, Jeffrey M Bethony, Philip L Felgner, Alex Loukas

“…We selected mostly surface-derived proteins, produced them using an in vitro rapid translation system and then printed them to generate the first protein microarray for a multi-cellular pathogen. Using well-established Brazilian cohorts of putatively resistant (PR) and chronically infected (CI) individuals stratified by the intensity of their S. mansoni infection, we probed arrays for IgG subclass and IgE responses to these antigens to detect antibody signatures that were reflective of protective vs. non-protective immune responses. …”
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Cognitive Impairments Induced by Concussive Mild Traumatic Brain Injury in Mouse Are Ameliorated by Treatment with Phenserine via Multiple Non-Cholinergic and Cholinergic Mechanism... by David Tweedie, Koji Fukui, Yazhou Li, Qian-Sheng Yu, Shani Barak, Ian A Tamargo, Vardit Rubovitch, Harold W Holloway, Elin Lehrmann, William H Wood, Yongqing Zhang, Kevin G Becker, Evelyn Perez, Henriette Van Praag, Yu Luo, Barry J Hoffer, Robert E Becker, Chaim G Pick, Nigel H Greig

“…Phenserine counteracted this by augmenting homeostatic mechanisms to mitigate oxidative stress, including superoxide dismutase [SOD] 1 and 2, and glutathione peroxidase [GPx], the activity and protein levels of which were measured by specific assays. Microarray analysis of hippocampal gene expression established that large numbers of genes were exclusively regulated by each individual treatment with a substantial number of them co-regulated between groups. …”
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Identification of ferroptosis-related key genes in tuberculosis by bioinformatics methods by Wenchuan Zhang, Dongxue Zhu, Hong Jiang, Limei Wang

“…Therefore, the aim of this study was to hypothesize and validate potential ferroptosis-related genes in Mtb infection through bioinformatics analysis, thereby offering insights for further investigation. The mRNA microarray expression profile datasets were sourced from the Gene Expression Omnibus. …”
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The proteomics of colorectal cancer: identification of a protein signature associated with prognosis. by Donna O'Dwyer, Lynda D Ralton, Aisling O'Shea, Graeme I Murray

“…Fifteen proteins that showed increased expression were validated by immunohistochemistry using a well characterised colorectal cancer tissue microarray containing 515 primary colorectal cancer, 224 lymph node metastasis and 50 normal colonic mucosal samples. …”
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Serum Adiponectin, Resistin, and Circulating Soluble Receptor for Advanced Glycation End Products in Colectomy Patients by Theodor Asgeirsson, Sen Zhang, Sok Kean Khoo, James H. Resau, Nadav Dujovny, Anthony J. Senagore

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Distribution of copy number alterations and impact of chromosome arm call thresholds for meningioma by Ruchit V. Patel, Hia S. Ghosh, David M. Meredith, Scott Ryall, Elizabeth B. Claus, Rameen Beroukhim, Azra H. Ligon, Sandro Santagata, Wenya Linda Bi

“…Here, we analyze 1042 meningiomas with whole-genome microarray data and 13 meningiomas with multifocal sampling to characterize how CNA thresholds influence molecular classification and prognostication. …”
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Comprehensive analysis pinpoints CCNA2 as a prognostic and immunological biomarker in non-small cell lung cancer by Liming Zhang, Shaoqiang Wang, Lina Wang

“…Methods We analyzed three microarray datasets from the Gene Expression Omnibus (GEO) repository to identify differentially expressed genes. …”
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Rab27a was identified as a prognostic biomaker by mRNA profiling, correlated with malignant progression and subtype preference in gliomas. by Hongjun Wang, Yan Zhao, Chuanbao Zhang, Mingyang Li, Chuanlu Jiang, Yongli Li

“…<h4>Experimental design</h4>We used a whole-genome mRNA expression microarray dataset of 220 glioma samples from the Chinese Glioma Genome Atlas (CGGA) database (http://www.cgga.org.cn) as a discovery set. …”
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