Transcriptomic Profiling of Virus-Host Cell Interactions following Chicken Anaemia Virus (CAV) Infection in an In Vivo Model. by Efstathios S Giotis, Lisa Rothwell, Alistair Scott, Tuanjun Hu, Richard Talbot, Daniel Todd, David W Burt, Elizabeth J Glass, Pete Kaiser

“…The global gene expression profiles of mock-infected (control) and CAV-infected chickens at 14 dpi were also compared using a chicken immune-related 5K microarray. Although in the thymus there was evidence of induction of an innate immune response following CAV infection, this was limited in magnitude. …”
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Transcriptional profiling of nitrogen fixation and the role of NifA in the diazotrophic endophyte Azoarcus sp. strain BH72. by Abhijit Sarkar, Barbara Reinhold-Hurek

“…<h4>Methodology/principal findings</h4>A DNA microarray, comprising 70-mer oligonucleotides representing 3989 open reading frames of the genome of strain BH72, was used for transcriptome studies. …”
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Profiling of glycan receptors for minute virus of mice in permissive cell lines towards understanding the mechanism of cell recognition. by Sujata Halder, Susan Cotmore, Jamie Heimburg-Molinaro, David F Smith, Richard D Cummings, Xi Chen, Alana J Trollope, Simon J North, Stuart M Haslam, Anne Dell, Peter Tattersall, Robert McKenna, Mavis Agbandje-McKenna

“…The cells showed an abundance of the sialylated glycan motifs recognized by the viruses in the SGM and previous glycan microarrays supporting their role in cellular recognition by MVM. …”
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The novel long noncoding RNA linc00467 promotes cell survival but is down-regulated by N-Myc. by Bernard Atmadibrata, Pei Y Liu, Nicolas Sokolowski, Lihong Zhang, Matthew Wong, Andrew E Tee, Glenn M Marshall, Tao Liu

“…Moreover, Affymetrix microarray analysis revealed that one of genes significantly up-regulated by linc00467 siRNA was the tumour suppressor gene DKK1. …”
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Identification of unique microRNA signature associated with lupus nephritis. by Jeannie L Te, Igor M Dozmorov, Joel M Guthridge, Kim L Nguyen, Joshua W Cavett, Jennifer A Kelly, Gail R Bruner, John B Harley, Joshua O Ojwang

“…In this study we investigated miRNA that are differentially expressed in lupus nephritis. Microarray technology was used to investigate differentially expressed miRNA in peripheral blood mononuclear cells (PBMCs) and Epstein-Barr Virus (EBV)-transformed cell lines obtained from lupus nephritis affected patients and unaffected controls. …”
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Gene expression profiles in Parkinson disease prefrontal cortex implicate FOXO1 and genes under its transcriptional regulation. by Alexandra Dumitriu, Jeanne C Latourelle, Tiffany C Hadzi, Nathan Pankratz, Dan Garza, John P Miller, Jeffery M Vance, Tatiana Foroud, Thomas G Beach, Richard H Myers

“…Single-nucleotide polymorphisms (SNPs) selected from a recent meta-analysis of PD genome-wide association studies (GWAS) were successfully genotyped in 50 out of the 53 microarray brains, allowing a targeted expression-SNP (eSNP) analysis for 52 SNPs associated with PD affection at genome-wide significance and the 189 probes from FoxO1 regulated genes. …”
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Decrease in pneumococcal co-colonization following vaccination with the seven-valent pneumococcal conjugate vaccine. by Carina Valente, Jason Hinds, Francisco Pinto, Silvio D Brugger, Katherine Gould, Kathrin Mühlemann, Hermínia de Lencastre, Raquel Sá-Leão

“…Microarray analysis confirmed the plyNCR-RFLP results. …”
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Expression of Genes Related to Germ Cell Lineage and Pluripotency in Single Cells and Colonies of Human Adult Germ Stem Cells by Sabine Conrad, Hossein Azizi, Maryam Hatami, Mikael Kubista, Michael Bonin, Jörg Hennenlotter, Karl-Dietrich Sievert, Thomas Skutella

“…Genome-wide comparisons with microarray analysis confirmed that different haGSC colonies exhibited gene expression heterogeneity with more or less pluripotency. …”
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Genetic Classification of Oral and Oropharyngeal Carcinomas Identifies Subgroups with a Different Prognosis by Serge J. Smeets, Ruud H. Brakenhoff, Bauke Ylstrab, Wessel N. van Wieringen, Mark A. van de Wiel, C. René Leemans, Boudewijn J. M. Braakhuis

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Exploration of Novel Biomarkers for Neurodegenerative Diseases Using Proteomic Analysis and Ligand-Binding Assays by Annalena Kenzelmann, Christina Boch, Ronny Schmidt, Mario Richter, Michael Schulz

“…Proteomic screening strategies, including antibody microarrays, are a powerful tool for biomarker discovery, but their findings should be confirmed using quantitative assays. …”
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Human Blood Autoantibodies in the Detection of Colorectal Cancer. by Ola H Negm, Mohamed R Hamed, Robert E Schoen, Richard L Whelan, Robert J Steele, John Scholefield, Elizabeth M Dilnot, H M C Shantha Kumara, John F R Robertson, Herbert F Sewell

“…We identified an antigen panel of sufficient sensitivity and specificity for early detection of CRC, based upon serum profiling of autoantibody response using a robust multiplex antigen microarray technology. This opens the possibility of a blood test for screening and detection of early colorectal cancer. …”
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A systems biological approach reveals multiple crosstalk mechanism between gram-positive and negative bacterial infections: an insight into core mechanism and unique molecular sign... by R Muthukumar, V Alexandar, Berla Thangam, Shiek S S J Ahmed

“…Further, to identify candidate molecules, the TLRs specific nodes were prioritized using microarray differential expressed genes. Of the top prioritized TLR 2 molecules, 70% were co-expressed. …”
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Examination of the functions and mechanism of KCP in mediating paclitaxel resistance in cervical squamous carcinoma cells by Yue He, Jian-Qing Xu, Jing-Jing Zhang, Zhen-You Liu, Chen Ji, Yang Liu, Yun-Fan Wang, Ming Wang, Yu-Mei Wu, Yan Wang

“…The downstream mechanism of KCP-mediated resistance to paclitaxel was then examined using human gene chip detection and IPA bioinformatics analysis, and qPCR analysis was used to validate its downstream genes.Results①Functional studies of SiHa cells showed that KCP knockout (sgRNA) inhibited colony formation and proliferation of SiHa cells in the presence of paclitaxel (p&lt;0.05). ②Using a whole human genome microarray, a total of 491 differentially expressed genes were identified in KCP knockout versus the NC SiHa cells. …”
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Knockdown of USF1 and USF2 drives prolonged changes in the gene expression response of M12-5B3 cells to DNA damage. by Kimberly S Bellingham-Johnstun, Lisa A Metzger, Jennifer L Stone, Kevin Gerrish, Pierre R Bushel, Michael L Sikes

“…Gene ontology analyses revealed that USF knockdown induced numerous changes in the expression of genes critical for immune development and function while diminishing the responsiveness of genes linked to DNA damage pathways. Microarray findings were confirmed by RT-qPCR for a panel of genes responsive to USF knockdown and/or irradiation. …”
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Identification of tuberculosis susceptibility genes with human macrophage gene expression profiles. by Nguyen Thuy Thuong Thuong, Sarah J Dunstan, Tran Thi Hong Chau, Vesteinn Thorsson, Cameron P Simmons, Nguyen Than Ha Quyen, Guy E Thwaites, Nguyen Thi Ngoc Lan, Martin Hibberd, Yik Y Teo, Mark Seielstad, Alan Aderem, Jeremy J Farrar, Thomas R Hawn

“…In an independent sample set of 34 individuals and a subset of highly regulated genes, 90% of the microarray results were confirmed by RT-PCR, including expression levels of CCL1, which distinguished the 3 clinical groups. …”
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A tumor-binding antibody with cross-reactivity to viral antigens by Michael J. Campa, Elizabeth B. Gottlin, Kevin Wiehe, Edward F. Patz

“…GT103 cross-reacted with multiple viral epitopes on a peptide microarray, with the top hits being peptides in the human endogenous retrovirus-K polymerase (HERV-K pol) protein and measles hemagglutinin glycoprotein. …”
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Serum and tear autoantibodies from NOD and NOR mice as potential diagnostic indicators of local and systemic inflammation in Sjögren’s disease by Shruti Singh Kakan, Sara Abdelhamid, Sara Abdelhamid, Yaping Ju, Yaping Ju, J. Andrew MacKay, J. Andrew MacKay, J. Andrew MacKay, Maria C. Edman, Indu Raman, Chengsong Zhu, Prithvi Raj, Sarah F. Hamm-Alvarez, Sarah F. Hamm-Alvarez

“…IgG and IgA reactivity in serum and tears from these models were probed in three studies against a panel of 80-120 autoantigens using autoantibody microarrays relative to serum and tears from healthy male BALB/c mice. …”
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The Rise of High Throughput

“…In this special focus section, the editors of BioTechniques explore the development of high-throughput applications in five areas of life science (page 27), while a primary research article by Kapetis et al. details an enhanced software platform capable of automated cross-platform microarray data analysis (page 33). It is our hope that through the articles in this section, readers will obtain a deeper understanding of high-throughput methodologies and their evolution.…”
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THE OPTIMIZED METHODS FOR DIAGNOSIS OF HEREDITARY FORMS OF EPILEPSY by A. G. Malov

“…The optimal methods for laboratory confirmation of epilepsy are: in the case of suspected chromosome pathology – the chromosomal microarray analysis; in the case of a disease with a suspected nuclear DNA mutation – the epilepsyassociated gene panel exome sequencing of nuclear DNA; and in the case of a disease suspected for a mitochondrial mutation – the mitochondrial DNA sequencing.…”
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Deficiency of C3a receptor attenuates the development of diabetic nephropathy by Ming-hui Zhao, Xiao-Qian Li, Dong-Yuan Chang

“…The mouse gene expression microarray was performed to further explore the pathogenic role of C3aR. …”
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