Genetic Analysis of Multiple Myeloma Identifies Cytogenetic Alterations Implicated in Disease Complexity and Progression by Can Li, Erik B. Wendlandt, Benjamin Darbro, Hongwei Xu, Gregory S. Thomas, Guido Tricot, Fangping Chen, John D. Shaughnessy, Fenghuang Zhan

“…In this study, we integrated data from whole genome gene expression profiling (GEP) microarrays and CytoScan HD high-resolution genomic arrays to integrate GEP with copy number variations (CNV) to more precisely define molecular alterations in MM important for disease initiation, progression and poor clinical outcome. …”
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SUMOylation Is Associated with Aggressive Behavior in Chondrosarcoma of Bone by Jessie S. Kroonen, Alwine B. Kruisselbrink, Inge H. Briaire-de Bruijn, Olaejirinde O. Olaofe, Judith V. M. G. Bovée, Alfred C. O. Vertegaal

“…Using immunohistochemistry on tissue microarrays (TMA) containing 137 chondrosarcomas, we showed that higher expression of SUMO1 and SUMO2/3 correlates with increased histological grade. …”
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Mass Spectrometry Imaging for Reliable and Fast Classification of Non-Small Cell Lung Cancer Subtypes by Mark Kriegsmann, Christiane Zgorzelski, Rita Casadonte, Kristina Schwamborn, Thomas Muley, Hauke Winter, Martin Eichhorn, Florian Eichhorn, Arne Warth, Soeren-Oliver Deininger, Petros Christopoulos, Michael Thomas, Thomas Longerich, Albrecht Stenzinger, Wilko Weichert, Carsten Müller-Tidow, Jörg Kriegsmann, Peter Schirmacher, Katharina Kriegsmann

“…We sought to test different classification algorithms and to validate results obtained in smaller patient cohorts. Tissue microarrays (TMAs) from including adenocarcinoma (ADC, <i>n</i> = 499) and squamous cell carcinoma (SqCC, <i>n</i> = 440), were analyzed. …”
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APOC1 is a prognostic biomarker associated with M2 macrophages in ovarian cancer by Shimin Yang, Jingxiao Du, Wei Wang, Dongmei Zhou, Xiaowei Xi

“…Additionally, we performed immunohistochemical staining on tissue microarrays and conducted in vitro cellular assays to validate our findings. …”
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Meldonium Ameliorates Hypoxia-Induced Lung Injury and Oxidative Stress by Regulating Platelet-Type Phosphofructokinase-Mediated Glycolysis by Daohui Wang, Daohui Wang, Fengying Liu, Weijie Yang, Yangyang Sun, Xiaoning Wang, Xin Sui, Jun Yang, Qian Wang, Wenhao Song, Minmin Zhang, Zhenyu Xiao, Tian Wang, Yongan Wang, Yuan Luo

“…We found using human proteome microarrays assay, molecular docking, immunofluorescence and pull-down assay that the target protein of meldonium is a platelet-type phosphofructokinase (PFKP), which is a rate-limiting enzyme of glycolysis. …”
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Clinical Significance of PDCD4 in Melanoma by Subcellular Expression and in Tumor-Associated Immune Cells by Thuy T. Tran, Chetan K. Rane, Christopher R. Zito, Sarah A. Weiss, Shlomit Jessel, Liliana Lucca, Benjamin Y. Lu, Victor O. Oria, Adebowale Adeniran, Veronica L. Chiang, Sacit Bulent Omay, David A. Hafler, Harriet M. Kluger, Lucia B. Jilaveanu

“…We analyzed multiple tissue microarrays with well-annotated clinicopathological variables using quantitative immunofluorescence and evaluated single-cell RNA-sequencing on a brain metastasis sample to characterize PDCD4+ immune cell subsets. …”
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Emerging Evidence of Noncoding RNAs in Bleb Scarring after Glaucoma Filtration Surgery by Sabrina Yu, Alex L. C. Tam, Robert Campbell, Neil Renwick

“…Four of the included papers used microarrays and qRT-PCR to identify up- or down-regulated microRNA (miRNA, miR) profiles and direct further study, with the remainder focusing on miRNAs or long noncoding RNAs (lncRNAs) based on previous work in other organs or disease processes. …”
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Comparative Genomic Hybridization and Transcriptome Sequencing Reveal Genes with Gain in Acute Lymphoblastic Leukemia: <i>JUP</i> Expression Emerges as a Survival-Related Gene by Jessica Alejandra Zapata-García, Alma Rocío Riveros-Magaña, Pablo Cesar Ortiz-Lazareno, Georgina Hernández-Flores, Luis Felipe Jave-Suárez, Adriana Aguilar-Lemarroy

“…In addition, validation of the genes found in these regions was performed utilizing RNAseq from JURKAT, CEM, and SUP-B15 cell lines, as well as expression microarrays derived from a MILE study. Chromosomes with common gain zones that were maintained in six or more samples were 14, 17, and 22, in which a total of 22 genes were identified. …”
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In silico and in vivo analysis of TIPE1 expression in diffuse large B cell lymphoma by Shen Pei, Shen Xianjuan, Chen Guo, Zhao Chunmei, Cai Hua, Xu Xinxin, Duan Yinong, Wang Xudong, Ju Shaoqing

“…Here we observed TIPE1 expression in diffuse large B cell lymphoma (DLBCL). Two microarrays containing 96 tumor tissue specimens were obtained from the Affiliated Hospital of Nantong University biobank. …”
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Phenotype Switching in Metal-Tolerant Bacteria Isolated from a Hyperaccumulator Plant by Artur Banach, Agnieszka Kuźniar, Anna Marzec-Grządziel, Anna Gałązka, Agnieszka Wolińska

“…We applied the Biolog^TM Phenotypic Microarrays platform to study the potential of the microbiome for the degradation of 96 carbon compounds and stress factors and assayed the hydrolytic potential and auxin production by the microorganisms in the presence of Pb, Cd, Cr (VI), Ni, Ag, and Au. …”
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Deconstructing Immune Cell Infiltration in Human Colorectal Cancer: A Systematic Spatiotemporal Evaluation by Emese Irma Ágoston, Balazs Acs, Zoltan Herold, Krisztina Fekete, Janina Kulka, Akos Nagy, Dorottya Mühl, Reka Mohacsi, Magdolna Dank, Tamas Garay, Laszlo Harsanyi, Balazs Győrffy, Attila Marcell Szasz

“…In this study, we evaluated a total of 242 surgical specimen of CRC patients using tissue microarrays and immunohistochemistry to evaluate tumor infiltrating immune cells (CD3, CD4, CD8, CD20, CD23, CD45 and CD56) and immune checkpoint markers (CTLA-4, PD-L1, PD-1) in systematically selected tumor regions and their corresponding lymph nodes, as well as in liver metastases. …”
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Genome-Wide SNP Signal Intensity Scanning Revealed Genes Differentiating Cows with Ovarian Pathologies from Healthy Cows by Ricardo Salomón-Torres, Martin F. Montaño-Gómez, Rafael Villa-Angulo, Víctor M. González-Vizcarra, Carlos Villa-Angulo, Gerardo E. Medina-Basulto, Noé Ortiz-Uribe, Padmanabhan Mahadevan, Víctor H. Yaurima-Basaldúa

“…Results show that SNP signal intensity, which captures not only information for base-pair genotypes elucidation, but the amount of fluorescence nucleotide synthetization produced in an enzymatic reaction, is a rich source of information that, by itself or in combination with base-pair genotypes, might be used to implement differentiation, prediction and diagnostic procedures, increasing the scope of applications for Genotyping Microarrays.…”
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Viral Integration Plays a Minor Role in the Development and Prognostication of Oral Squamous Cell Carcinoma by Laveniya Satgunaseelan, Dario Strbenac, Sahithi Tadi, Kevin Nguyen, James Wykes, Carsten E. Palme, Tsu-Hui (Hubert) Low, Jean Y. H. Yang, Jonathan R. Clark, Ruta Gupta

“…The findings were further verified using tissue microarrays of OSCC samples using both immunohistochemistry and RNA in situ hybridisation (ISH). 28 patients underwent WGS and comprehensive viral profiling. …”
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Transcriptomic Analysis of Ciguatoxin-Induced Changes in Gene Expression in Primary Cultures of Mice Cortical Neurons by Juan Andrés Rubiolo, Carmen Vale, Andrea Boente-Juncal, Masahiro Hirama, Shuji Yamashita, Mercedes Camiña, Mercedes R. Vieytes, Luis M. Botana

“…To study the effect of ciguatoxins in primary neurons in culture, we performed a transcriptomic analysis using whole mouse genome microarrays, for primary cortical neurons exposed during 6, 24, or 72 h in culture to CTX3C. …”
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<i>Escherichia coli</i> O157:H7 F9 Fimbriae Recognize Plant Xyloglucan and Elicit a Response in <i>Arabidopsis thaliana</i> by Ashleigh Holmes, Yannick Rossez, Kathryn Mary Wright, Pete Edward Hedley, Jenny Morris, William George Tycho Willats, Nicola Jean Holden

“…As fimbriae are multimeric structures with a molecular pattern, we investigated whether F9 fimbriae could induce a transcriptional response in model plant <i>Arabidopsis thaliana</i>, compared with flagella and another fimbrial type, <i>E. coli</i> common pilus (ECP), using DNA microarrays. F9 induced the differential expression of 435 genes, including genes involved in the plant defence response. …”
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MPP7 as a Novel Biomarker of Esophageal Cancer: MPP7 Knockdown Inhibits Esophageal Cancer Cell Migration and Invasion by Zhaodong Li, Yongyao Tang, Jing Cai, Shunlong Wu, Fangzhou Song

“…Expression analyses of immunohistochemical microarrays with survival and prognostic information of 103 patients with esophageal cancer demonstrated that MPP7 was overexpressed in 52 patients, who showed poor survival rates. …”
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Elafin as a Prognostic Marker in Esophageal Squamous Cell Carcinoma: A Pilot Study Using Three-Dimensional Imaging and Genomic Profiling by Wei-Chung Chen, Chun-Chieh Wu, Yu-Peng Liu, Guan-Yu Zhuo, Yao-Kuang Wang, Yi-Hsun Chen, Chu-Chih Chen, Yin-Han Wang, Ming-Tsang Wu, I-Chen Wu

“…Then, after analyzing data obtained from whole-genome microarrays for ESCC cell lines and their more invasive sublines, we performed in vitro experiments using RNA sequencing to identify possible elafin-related pathways. …”
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An Integrated Epigenomic and Genomic View on Phyllodes and Phyllodes-like Breast Tumors by Juergen Hench, Tatjana Vlajnic, Savas Deniz Soysal, Ellen C. Obermann, Stephan Frank, Simone Muenst

“…DNA methylation and CNVs were determined by well-established microarrays. Comparison of the patterns with a pan-cancer dataset assembled from public resources including “The Cancer Genome Atlas” (TCGA) and “Gene Expression Omnibus” (GEO) suggests that FLs form a methylation class distinct from both control breast tissue as well as common breast cancers. …”
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Transcriptomics for Clinical and Experimental Biology Research: Hang on a Seq by Tanner Stokes, Haoning Howard Cen, Philipp Kapranov, Iain J Gallagher, Andrew A. Pitsillides, Claude‐Henry Volmar, William E Kraus, James D. Johnson, Stuart M. Phillips, Claes Wahlestedt, James A. Timmons

“…Abstract Sequencing the human genome empowers translational medicine, facilitating transcriptome‐wide molecular diagnosis, pathway biology, and drug repositioning. Initially, microarrays are used to study the bulk transcriptome; but now short‐read RNA sequencing (RNA‐seq) predominates. …”
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Targeting metastasis-initiating cancer stem cells in gastric cancer with leukaemia inhibitory factor by Lornella Seeneevassen, Anissa Zaafour, Elodie Sifré, Coralie Genevois, Tra Ly Nguyen, Yasmine Pobiedonoscew, Alban Giese, Jérôme Guignard, Camille Tiffon, Benoit Rousseau, Anne-Aurélie Raymond, Geneviève Belleannée, Hélène Boeuf, Caroline Gronnier, Océane C. B. Martin, Julie Giraud, Philippe Lehours, Pierre Dubus, Christine Varon

“…LIFR expression was analysed on tissue microarrays from GC patients and in silico from public databases. …”
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