Development and validation of a Luminex assay for detection of a predictive biomarker for PROSTVAC-VF therapy. by Julie L Lucas, Erin A Tacheny, Allison Ferris, Michelle Galusha, Apurva K Srivastava, Aniruddha Ganguly, P Mickey Williams, Michael C Sachs, Magdalena Thurin, James V Tricoli, Winnie Ricker, Jeffrey C Gildersleeve

“…Strategies to identify patients likely to respond well to a given therapy could significantly improve health care outcomes by maximizing clinical benefits while reducing toxicities and adverse effects. …”
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The CO-Regulation Database (CORD): a tool to identify coordinately expressed genes. by John P Fahrenbach, Jorge Andrade, Elizabeth M McNally

“…<h4>Conclusions</h4>We developed a facile, web-enabled program to determine gene-gene correlations across different gene expression microarray platforms. Using well-characterized genes, we illustrate how CORD's identification of co-expressed genes contributes to a better understanding a gene's potential function. …”
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Prenatal Diagnosis of WAGR Syndrome by Berrin Tezcan, Philip Rich, Amarnath Bhide

“…The diagnosis of the anomaly was based on two- and three-dimensional ultrasound as well as fetal MRI scan and microarray analysis. The ultrasonographic findings included borderline ventriculomegaly, absent corpus callosum, and absent cavum septum pellucidum. …”
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Attenuated monocyte apoptosis, a new mechanism for osteoporosis suggested by a transcriptome-wide expression study of monocytes. by Yao-Zhong Liu, Yu Zhou, Lei Zhang, Jian Li, Qing Tian, Ji-Gang Zhang, Hong-Wen Deng

“…<h4>Method</h4>Differential gene expression analysis in high vs. low BMD subjects was conducted in the total cohort as well as pre- and post-menopausal subjects. Focusing on the top differentially expressed genes identified in the total, the pre- and the postmenopausal subjects (with a p <5E-03), we performed replication of the findings in 3 independent datasets of microarray analyses of monocytes (total N = 125).…”
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Aberrant expression of shared master-key genes contributes to the immunopathogenesis in patients with juvenile spondyloarthritis. by Lovro Lamot, Fran Borovecki, Lana Tambic Bukovac, Mandica Vidovic, Marija Perica, Kristina Gotovac, Miroslav Harjacek

“…Association of juvenile spondyloarthritis (jSpA) with the HLA-B27 genotype is well established, but there is little knowledge of other genetic factors with a role in the development of the disease. …”
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GenomicScape: an easy-to-use web tool for gene expression data analysis. Application to investigate the molecular events in the differentiation of B cells into plasma cells. by Alboukadel Kassambara, Thierry Rème, Michel Jourdan, Thierry Fest, Dirk Hose, Karin Tarte, Bernard Klein

“…DNA microarrays have considerably helped to improve the understanding of biological processes and diseases. …”
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MicroRNA profiling in human colon cancer cells during 5-fluorouracil-induced autophagy. by Ni Hou, Jia Han, Jie Li, Yingxun Liu, Yannan Qin, Lei Ni, Tusheng Song, Chen Huang

“…The physiological importance of the miRNA-autophagy interconnection is only beginning to be elucidated. MiRNA microarray technology facilitates analysis of global miRNA expression in certain situations. …”
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Genome-wide analysis of m6A-modified circRNAs in the mouse model of myocardial injury induced by obstructive sleep apnea by Jiuhuang Lan, Yuhui Wang, Chang Liu, Hongli Chen, Qingshi Chen

“…Methods Firstly, the expression profiles of m6A-modified circRNA in left ventricular tissue of the CIH mouse model were examined using circRNA microarray analysis. Then, the expression level of selected circrRNA was compared by folding change filtration, and the consistency between them and microarray results was verified by MeRIP-qPCR. …”
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Alveolar macrophages infected with Ames or Sterne strain of Bacillus anthracis elicit differential molecular expression patterns. by Felicia D Langel, Chih-Yuan Chiang, Douglas Lane, Tara Kenny, Jenifer F Ojeda, Yang Zhong, Jianwei Che, Yingyao Zhou, Wilson Ribot, Krishna P Kota, Sina Bavari, Rekha G Panchal

“…Although differences in the outcome of infection with the two strains may have originated from the presence or absence of an anti-phagocytic capsule, the disease pathogenesis following infection will be manifested via the host responses, which is not well understood. To gain understanding of the host responses at cellular level, a microarray analysis was performed using primary rhesus macaque AMs infected with either Ames or Sterne spores. …”
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Transcript analysis reveals a specific HOX signature associated with positional identity of human endothelial cells. by Mark Toshner, Benjamin J Dunmore, Eoin F McKinney, Mark Southwood, Paola Caruso, Paul D Upton, John P Waters, Mark L Ormiston, Jeremy N Skepper, Gerard Nash, Amer A Rana, Nicholas W Morrell

“…The role of developmental programming versus the tissue contextual environment for this specialization is not well understood. Here we describe a hierarchy of expression of HOX genes associated with endothelial cell origin and location. …”
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The role of sialyl glycan recognition in host tissue tropism of the avian parasite Eimeria tenella. by Livia Lai, Janene Bumstead, Yan Liu, James Garnett, Maria A Campanero-Rhodes, Damer P Blake, Angelina S Palma, Wengang Chai, David J P Ferguson, Peter Simpson, Ten Feizi, Fiona M Tomley, Stephen Matthews

“…Thus the parasite is well adapted to the avian host which lacks N-glycolyl neuraminic acid. …”
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Unique intrahepatic transcriptomics profiles discriminate the clinical phases of a chronic HBV infection. by Jun Hou, Willem P Brouwer, Kim Kreefft, Lucio Gama, Sarah L Price, Harry L A Janssen, Pim J French, Thomas Vanwolleghem, Andre Boonstra

“…Therefore, we determined, for the first time, intrahepatic global expression profiles of well-characterized chronic HBV patients at different clinical phases. …”
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AgileMultiIdeogram: Rapid Identification and Visualization of Autozygous Regions Using Illumina Short-Read Sequencing Data by Christopher M. Watson, Carolina Lascelles, Morag Raynor, Marilena Elpidorou, Ummey Hany, Laura Crinnion, Colin A. Johnson, Eamonn Sheridan, Alexander F. Markham, James A. Poulter, David T. Bonthron, Ian M. Carr

“…They occur more frequently in individuals with consanguineous parents, in which case the pathogenic variants are often located within regions of genetic identity by descent. A well-established and effective way of identifying these “autozygous” genomic regions has been to search for runs of homozygous genotypes in microarray SNP data. …”
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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

“…Based on these findings, we postulate that these differentially expressed miRNA may be potential novel biomarkers for SLE as well as help elucidate pathogenic mechanisms of lupus nephritis. …”
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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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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

“…Although, both the TLRs share common signaling mechanism yet they may exhibit specificity as well, resulting in the release of diverse range of inflammatory mediators which could be used as candidate biomolecules for bacterial infections.…”
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Mutation Spectrum of the ABCA4 Gene in a Greek Cohort with Stargardt Disease: Identification of Novel Mutations and Evidence of Three Prevalent Mutated Alleles by Kamakari Smaragda, Kokkinou Vassiliki, Koutsodontis George, Stamatiou Polixeni, Giatzakis Christoforos, Anastasakis Anastasios, Aslanides Ioannis Minas, Koukoula Stavrenia, Panagiotoglou Theoni, Datseris Ioannis, Tsilimbaris K. Miltiadis

“…A total of 59 patients were analyzed for ABCA4 mutations using the ABCR400 microarray and PCR-based sequencing of all coding exons and flanking intronic regions. …”
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Global gene expression profiling reveals SPINK1 as a potential hepatocellular carcinoma marker. by Aileen Marshall, Margus Lukk, Claudia Kutter, Susan Davies, Graeme Alexander, Duncan T Odom

“…Six genes identified by microarray as highly expressed in HH-HCC were confirmed by RT qPCR. …”
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