Beyond microarrays: Finding key transcription factors controlling signal transduction pathways by Kel Alexdander, Voss Nico, Jauregui Ruy, Kel-Margoulis Olga, Wingender Edgar

“…<p>Abstract</p> <p>Background</p> <p>Massive gene expression changes in different cellular states measured by microarrays, in fact, reflect just an "echo" of real molecular processes in the cells. …”

Optimization of gene expression microarray protocol for formalin-fixed paraffin-embedded tissues by Nevin Belder, Öznur Coşkun, Beyza Doğanay Erdoğan, Berna Savaş, Arzu Ensari, Hilal Özdağ

“…However, there is still no generally accepted, efficient and standardized procedure for microarray analysis of FFPE samples. This paper describes the microarray data presented in our recently accepted to be published article showing a standard protocol from deparaffinization of FFPE tissue sections and RNA extraction to microarray gene expression analysis. …”
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Extending the tissue microarray data exchange specification for inclusion of data analysis results by Oliver Lyttleton, Alexander Wright, Darren Treanor, Philip Quirke, Paul Lewis

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Cross-platform normalization of microarray and RNA-seq data for machine learning applications by Jeffrey A. Thompson, Jie Tan, Casey S. Greene

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Impact of the spotted microarray preprocessing method on fold-change compression and variance stability by Macq Benoît, Govaerts Bernadette, Robert Annie, Bearzatto Bertrand, Ambroise Jérôme, Gala Jean-Luc

“…<p>Abstract</p> <p>Background</p> <p>The standard approach for preprocessing spotted microarray data is to subtract the local background intensity from the spot foreground intensity, to perform a log2 transformation and to normalize the data with a global median or a lowess normalization. …”
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Eight Differential miRNAs in DN Identified by Microarray Analysis as Novel Biomarkers by Tu C, Wei L, Wang L, Tang Y

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Deep learning techniques for cancer classification using microarray gene expression data by Surbhi Gupta, Surbhi Gupta, Manoj K. Gupta, Mohammad Shabaz, Ashutosh Sharma

“…Cancer is one of the top causes of death globally. Recently, microarray gene expression data has been used to aid in cancer’s effective and early detection. …”
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Robotic Cell Printing for Constructing Living Yeast Cell Microarrays in Microfluidic Chips by Charlotte Yvanoff, Stefania Torino, and Ronnie G. Willaert

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High-throughput processing and normalization of one-color microarrays for transcriptional meta-analyses by Wren Jonathan D, Dozmorov Mikhail G

“…<p>Abstract</p> <p>Background</p> <p>Microarray experiments are becoming increasingly common in biomedical research, as is their deposition in publicly accessible repositories, such as Gene Expression Omnibus (GEO). …”

VennMaster: Area-proportional Euler diagrams for functional GO analysis of microarrays by Gress Thomas M, Buchholz Malte, Kraus Johann M, Müller André, Kestler Hans A, Liu Hongfang, Kane David W, Zeeberg Barry R, Weinstein John N

“…<p>Abstract</p> <p>Background</p> <p>Microarray experiments generate vast amounts of data. …”
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A temporal precedence based clustering method for gene expression microarray data by Buchanan-Wollaston Vicky, Li Chang-Tsun, Krishna Ritesh

“…<p>Abstract</p> <p>Background</p> <p>Time-course microarray experiments can produce useful data which can help in understanding the underlying dynamics of the system. …”
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A process for analysis of microarray comparative genomics hybridisation studies for bacterial genomes by Woodward Martin J, Wu Guanghui, Carter Ben, Anjum Muna F

“…<p>Abstract</p> <p>Background</p> <p>Microarray based comparative genomic hybridisation (CGH) experiments have been used to study numerous biological problems including understanding genome plasticity in pathogenic bacteria. …”
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Prenatal diagnosis and genetic etiology analysis of talipes equinovarus by chromosomal microarray analysis by Xiaorui Xie, Baojia Huang, Linjuan Su, Meiying Cai, Yuqin Chen, Xiaoqing Wu, Liangpu Xu

“…The study aimed to explore the molecular etiology of fetal TE and provide more information for the clinical screening and genetic counseling of TE by Chromosomal Microarray Analysis (CMA). Methods This retrospectively study included 131 fetuses with TE identified by ultrasonography. …”
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Single-stranded DNA catalyzes hybridization of PCR-products to microarray capture probes. by Simon Dally, Steffen Rupp, Karin Lemuth, Stefan C Hartmann, Ekkehard Hiller, Susanne M Bailer, Cornelius Knabbe, Jan Weile

“…Since its development, microarray technology has evolved to a standard method in the biotechnological and medical field with a broad range of applications. …”
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Simulation and Experimental Study of Laser Processing NdFeB Microarray Structure by Yong Zhao, Shuo Wang, Wenhui Yu, Pengyu Long, Jinlong Zhang, Wentao Tian, Fei Gao, Zhuji Jin, Hongyu Zheng, Chunjin Wang, Jiang Guo

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KinSNP software for homozygosity mapping of disease genes using SNP microarrays by Amir El-Ad, Bartal Ofer, Morad Efrat, Nagar Tal, Sheynin Jony, Parvari Ruti, Chalifa-Caspi Vered

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Tissue MicroArray (TMA) analysis of normal and persistent <it>Chlamydophila pneumoniae </it>infection by Timms Peter, Miller Richard D, Sullivan Erin D, Kaiser Carmen, Mukhopadhyay Sanghamitra, Borel Nicole, Summersgill James T, Ramirez Julio A, Pospischil Andreas

“…</p> <p>Methods</p> <p>We validated the use of tissue microarray (TMA) technology, in combination with immunohistochemistry (IHC), to test antibodies (GroEL, GroES, GspD, Ndk and Pyk) raised against differentially expressed proteins under an interferon-gamma (IFN-γ) induced model of chlamydial persistence.…”
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MSIMEP: Predicting microsatellite instability from microarray DNA methylation tumor profiles by Martín Santamarina-García, Jenifer Brea-Iglesias, Jesper Bertram Bramsen, Mar Fuentes-Losada, Francisco Javier Caneiro-Gómez, José Ángel Vázquez-Bueno, Héctor Lázare-Iglesias, Natalia Fernández-Díaz, Laura Sánchez-Rivadulla, Yoel Z. Betancor, Miriam Ferreiro-Pantín, Pablo Conesa-Zamora, José Ramón Antúnez-López, Masahito Kawazu, Manel Esteller, Claus Lindbjerg Andersen, Jose M.C. Tubio, Rafael López-López, Juan Ruiz-Bañobre

“…Considering this together with the fact that MSI-high tumors frequently exhibit a hypermethylated phenotype, herein we developed and validated MSIMEP, a computational tool for predicting MSI status from microarray DNA methylation tumor profiles of colorectal cancer samples. …”
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Microarray dataset of Jurkat cells following miR-93 over-expression by Silvia Gioiosa, Lorena Verduci, Gianluca Azzalin, Claudia Carissimi, Valerio Fulci, Giuseppe Macino

“…The dataset presented here represents a microarray experiment of Jurkat cell line over-expressing miR-93 after lentiviral transgenic construct transduction. …”
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Very Important Pool (VIP) genes – an application for microarray-based molecular signatures by Perkins Roger, Shi Leming, Fang Hong, Hong Huixiao, Su Zhenqiang, Tong Weida

“…<p>Abstract</p> <p>Background</p> <p>Advances in DNA microarray technology portend that molecular signatures from which microarray will eventually be used in clinical environments and personalized medicine. …”