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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CHD1 contributes to intestinal resistance against infection by P. aeruginosa in Drosophila melanogaster. by Johanna Sebald, Stefano Morettini, Valerie Podhraski, Cornelia Lass-Flörl, Alexandra Lusser

“…Evidence for a role as transcriptional regulator comes from its colocalization with elongating RNA polymerase II as well as from studies of fly Hsp70 transcription. Here we used microarray analysis to identify target genes of CHD1. …”
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Anti‐Metastatic Effects of Aprepitant on Glioblastoma Cells: Targeting the Substance P/Neurokinin‐1 Pathway by Selin Engür‐Öztürk, Elif Kaya‐Tilki, Miriş Dikmen

“…Gene and protein expression levels were assessed by RT‐PCR, ELISA, and microarray analysis. Results Aprepitant significantly reduced glioma cell proliferation, migration, and invasion in a dose‐dependent manner. …”
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HspB5 correlates with poor prognosis in colorectal cancer and prompts epithelial-mesenchymal transition through ERK signaling. by Qinghua Li, Yanlan Wang, Yuexing Lai, Ping Xu, Zhiwen Yang

“…The in vitro studies revealed that high HspB5 expression could prompt tumor cell proliferation and invasion, as well as EMT. Gene-microarray analysis suggested three significant signaling pathways (PI3K, p38 and ERK) were involved in HspB5-induced EMT. …”
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Concave Magnetic-Responsive Hydrogel Discs for Enhanced Bioassays by Amin Ghaffarzadeh Bakhshayesh, Huiyan Li

“…This approach enables immediate preparation and customization of hydrogel properties such as porosity, magnetic responsiveness, and embedded particles and is adaptable for use with microarray printers. The concave design increased the surface area by 43% compared to conventional hemispherical hydrogels, enhancing diffusion rates and accelerating reactions. …”
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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

“…In this study, we identified a distinct stage within the initiation phase of CM reprogramming before the MET process, and microarray analysis revealed the strong up‐regulation of several mitosis‐related genes at this stage of reprogramming. …”
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miR-361-5p contributes to the pathogenesis of Alzheimer’s disease by Abbas Jalaiei, Jalal Gharesouran, Shahram Arsang-Jang, Mahnaz Talebi, Maryam Rezazadeh, Soudeh Ghafouri-Fard

“…This study investigated the roles of HOMER1, ATAD1, and miR-361 in AD pathogenesis using microarray (GSE106241, GSE157239; n = 60) and RT-PCR (n = 100; 50 AD patients, 50 controls from Northwest Iran) analyses. …”
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Diagnostic and taxonomic challenges in chronic myelomonocytic leukemia with lymph node involvement: A case report and mini-review by Bhaumik Shah, Mitra Abdollahi-Neisani, Pegah Taheri, Asya Varshavsky, Reza Nejati, Nicholas Mackrides

“…Comprehensive genomic profiling, using chromosomal microarray and NGS-based sequencing, identified copy neutral loss of heterozygosity (cn-LOH), previously unreported in extramedullary CMML. …”
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RNAmigos2: accelerated structure-based RNA virtual screening with deep graph learning by Juan G. Carvajal-Patiño, Vincent Mallet, David Becerra, Luis Fernando Niño Vasquez, Carlos Oliver, Jérôme Waldispühl

“…It is robust to binding site variations and successfully screens unseen RNA riboswitches in a 20,000-compound in-vitro microarray, with a mean enrichment factor of 2.93 at 1%. …”
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Unsupervised machine learning-based stratification and immune deconvolution of liver hepatocellular carcinoma by Mae Montserrat Reierson, Animesh Acharjee

“…Methods The unsupervised machine learning methods— agglomerative hierarchical clustering, Multi-Omics Factor Analysis with K-means++, and an autoencoder with K-means++ — stratified patients using microarray data from HCC samples. Immune deconvolution algorithms estimated the proportions of infiltrating immune cells across identified clusters. …”
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Mycobacterial mutants with defective control of phagosomal acidification. by Graham R Stewart, Janisha Patel, Brian D Robertson, Aaron Rae, Douglas B Young

“…Identification of the mycobacterial components that contribute to this phenomenon will allow rational design of novel approaches to the treatment and prevention of tuberculosis. Microarray-based screening of a transposon library was used to identify mutations that influence the fate of Mycobacterium bovis bacille Calmette-Guérin (BCG) following uptake by macrophages. …”
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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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Integrated multiomics analysis identifies potential biomarkers and therapeutic targets for autophagy associated AKI to CKD transition by Yaojun Wang, Qiang Li

“…We performed weighted correlation network analysis (WGCNA) using two microarray datasets (GSE139061 and GSE66494) in the GEO database and identified autophagy signatures by Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG), and GSEA enrichment analysis. …”
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Miz1 deficiency in the mammary gland causes a lactation defect by attenuated Stat5 expression and phosphorylation. by Adrián Sanz-Moreno, David Fuhrmann, Elmar Wolf, Björn von Eyss, Martin Eilers, Hans-Peter Elsässer

“…Gene expression of the Prolactin receptor (PrlR) and ErbB4, both critical for Stat5 phosphorylation (pStat5) or pStat5 nuclear translocation, was decreased in Miz1ΔPOZ females. Microarray, ChIP-Seq and gene set enrichment analysis revealed a down-regulation of Miz1 target genes being involved in vesicular transport processes. …”
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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

“…Multi-Locus Sequence Typing (MLST) and SCCmec typing revealed two profiles (ST398-MRSA-V and ST8-MRSA-IVa), which were distinct using pulse-field gel electrophoresis (PFGE) and microarray (antimicrobial resistance and virulence genes) analyses. …”
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Genomic imbalances detected through array CGH in fetuses with holoprosencephaly by Isabela Nelly Machado, Juliana Karina Heinrich, Ricardo Barini

“…CONCLUSION: This is the first report of molecular characterization through a whole genome microarray CGH of fetuses with HPE. Our results may contribute to verify the effectiveness and applicability of the molecular technique of array CGH for prenatal diagnosis purposes, and contributing to the knowledge of the submicroscopic genomic instability characterization of HPE fetuses.…”
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Xirp proteins mark injured skeletal muscle in zebrafish. by Cécile Otten, Peter F van der Ven, Ilka Lewrenz, Sandeep Paul, Almut Steinhagen, Elisabeth Busch-Nentwich, Jenny Eichhorst, Burkhard Wiesner, Derek Stemple, Uwe Strähle, Dieter O Fürst, Salim Abdelilah-Seyfried

“…In comparison little is known about cellular repair mechanisms within myocellular tissue in response to small injuries caused by biomechanical or cellular stress. Using a microarray analysis for genes upregulated upon myocellular injury, we identified zebrafish Xin-actin-binding repeat-containing protein1 (Xirp1) as a marker for wounded skeletal muscle cells. …”
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Gene Expression Changes Induced by PPAR Gamma Agonists in Animal and Human Liver by Alexandra Rogue, Catherine Spire, Manuel Brun, Nancy Claude, André Guillouzo

“…Several studies have been conducted using PCR analysis and microarray technology to identify possible target genes and here we review the data obtained from various in vivo and in vitro experimental models. …”
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Functional dissection of the TBK1 molecular network. by Adriana Goncalves, Tilmann Bürckstümmer, Evelyn Dixit, Ruth Scheicher, Maria W Górna, Evren Karayel, Cristina Sugar, Alexey Stukalov, Tiina Berg, Robert Kralovics, Melanie Planyavsky, Keiryn L Bennett, Jacques Colinge, Giulio Superti-Furga

“…Point mutants that affect binding of individual adaptors were used to reconstitute TBK1/IKK-i-deficient cells and dissect the functional relevance of the individual kinase-adaptor edges within the network. Using a microarray-derived gene expression signature of TBK1 in response virus infection or poly(I∶C) stimulation, we found that TBK1 activation was strictly dependent on the integrity of the TBK1/TANK interaction.…”
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Theory on the coupled stochastic dynamics of transcription and splice-site recognition. by Rajamanickam Murugan, Gabriel Kreiman

“…We evaluate these theoretical predictions by considering human and mouse exon microarray data as well as RNAseq data from multiple different tissues. …”
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