Genotyping of Staphylococcus aureus associated with nasal colonization among healthcare workers using DNA microarray by Abiola Catherine Senok, Ali Somily, Muhabat Raji, Ghada Garaween, Maha Kabil, Atef Shibl, Stefan Monecke, Ralf Ehricht

“…Methodology: Nasal swabs were obtained from 93 HCWs and molecular characterization of identified S. aureus isolates was carried out using the StaphyType DNA microarray (Alere Technologies GmbH, Jena, Germany). …”
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Deconvolution of expression microarray data reveals 131I-induced responses otherwise undetected in thyroid tissue. by Britta Langen, Nils Rudqvist, Johan Spetz, Khalil Helou, Eva Forssell-Aronsson

“…Deconvolution also resolved an issue with detecting damage and stress responses in enriched data, and may reduce false negatives in other contexts as well. These findings indicate that deconvolution can optimize microarray data analysis of heterogeneous sample material for biomarker screening or other clinical applications.…”
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Bioinformatics analysis based on microarray data reveals molecular crosstalk and immune relationship between sarcopenia and atherosclerosis by Jinghong Yang, Jun Zhong, Yimin Du, Jialin Liu, Zhong Li, Yanshi Liu

“…Methods: We screened microarray data from the Gene Expression Omnibus to explore the relationship between atherosclerosis and sarcopenia. …”
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A Case of Hairy Cell Leukemia Diagnosed Simultaneously with Lymphoplasmacytic Lymphoma by Anti-CD Antibody Microarray Method by AN Khvastunova, LS Al-Radi, OS Fedyanina, SA Lugovskaya, SA Kuznetsova

“…The use of anti-CD antibody microarray enabled the simultaneous assessment of immunophenotype as well as morphological and cytochemical analysis. …”
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Systematic spatial bias in DNA microarray hybridization is caused by probe spot position-dependent variability in lateral diffusion. by Doris Steger, David Berry, Susanne Haider, Matthias Horn, Michael Wagner, Roman Stocker, Alexander Loy

“…Numerical simulations reveal a strong influence of microarray well geometry on the spatial bias.<h4>Conclusions</h4>Reciprocal adjustment of the size of the microarray hybridization chamber to the area of surface-bound probes is a simple and effective measure to minimize or eliminate the diffusion-based bias, resulting in increased uniformity and accuracy of quantitative DNA microarray hybridization.…”
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Differential anti-glycan antibody responses in Schistosoma mansoni-infected children and adults studied by shotgun glycan microarray. by Angela van Diepen, Cornelis H Smit, Loes van Egmond, Narcis B Kabatereine, Angela Pinot de Moira, David W Dunne, Cornelis H Hokke

“…<h4>Conclusions/significance</h4>Using the shotgun glycan microarray approach to study antibody response profiles against schistosome-derived glycan elements, we have defined groups of infected individuals as well as glycan element clusters to which antibody responses are directed in S. mansoni infections. …”
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Identification of Specific microRNAs in Adipose Tissue Affected by Lipedema by Erika Cione, Sandro Michelini, Diana Marisol Abrego-Guandique, Nicola Vaia, Serena Michelini, Valeria Puleo, Matteo Bertelli, Maria Cristina Caroleo, Roberto Cannataro

“…Then, several bioinformatics tools were used to analyze microarray data focusing on validated target genes in silico. …”
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Prevalence and clinical significance of Claudin-3 expression in cancer: a tissue microarray study on 14,966 tumor samples by Seyma Büyücek, Nina Schraps, Anne Menz, Florian Lutz, Viktoria Chirico, Florian Viehweger, David Dum, Ria Schlichter, Andrea Hinsch, Christoph Fraune, Christian Bernreuther, Martina Kluth, Claudia Hube-Magg, Katharina Möller, Viktor Reiswich, Andreas M. Luebke, Patrick Lebok, Sören Weidemann, Guido Sauter, Maximilian Lennartz, Frank Jacobsen, Till S. Clauditz, Andreas H. Marx, Ronald Simon, Stefan Steurer, Eike Burandt, Natalia Gorbokon, Sarah Minner, Till Krech, Morton Freytag

“…Methods To comprehensively determine the prevalence of CLDN3 expression in cancer, a tissue microarray containing 14,966 samples from 133 different tumor types and subtypes as well as 608 samples of 76 different normal tissue types was analyzed by immunohistochemistry. …”
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BRCA1 protein expression and subcellular localization in primary breast cancer: Automated digital microscopy analysis of tissue microarrays. by Abeer M Mahmoud, Virgilia Macias, Umaima Al-Alem, Ryan J Deaton, Andre Kadjaksy-Balla, Peter H Gann, Garth H Rauscher

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Unlocking breast cancer in Brazilian public health system: Using tissue microarray for accurate immunohistochemical evaluation with limitations in subtyping by Rubia Denise Ruppenthal, Emily Ferreira Salles Pilar, Jordan Boeira dos Santos, Rafael Correa Coelho, Carina Machado Costamilan Henriques, Diego de Mendonça Uchôa, Marcia Silveira Graudenz

“…This ultimately affected the accuracy of BC subtyping. TMA performed well in identifying luminal A and triple-negative cases, but misclassification was common for luminal B and HER2-positive cases. …”
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Microarray analysis of LTR retrotransposon silencing identifies Hdac1 as a regulator of retrotransposon expression in mouse embryonic stem cells. by Judith Reichmann, James H Crichton, Monika J Madej, Mary Taggart, Philippe Gautier, Jose Luis Garcia-Perez, Richard R Meehan, Ian R Adams

“…However, although silencing of selected individual retrotransposons can be relatively well-studied, many mammalian retrotransposons are seldom analysed and their silencing in germ cells, pluripotent cells or somatic cells remains poorly understood. …”
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Biomarker Identification for Prostate Cancer and Lymph Node Metastasis from Microarray Data and Protein Interaction Network Using Gene Prioritization Method by Carlos Roberto Arias, Hsiang-Yuan Yeh, Von-Wun Soo

“…We applied the same technique to infer the significant biomarkers in prostate cancer with lymph nodes metastasis which is not established well.…”
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Microarray Analysis Reveals Sepsis Is a Syndrome with Hyperactivity of TH17 Immunity, with Over-Presentation of the Treg Cell Cytokine TGF-β by Yu-Ju Chen, Jang-Jih Lu, Chih-Pei Lin, Wan-Chung Hu

“…On the contrary, the hypoimmune theory suggests that immunosuppression causes the manifestations of sepsis. By conducting a microarray analysis on peripheral leukocytes from patients with sepsis, this study found that hyperactivity of TH17 immunity was noted in sepsis patients. …”
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Discovery and mechanism of anti-hypertensive effect of a novel tripeptide (SYP) from medicinal fungus Ganoderma lingzhi by Qiang Wu, Feijun Luo, Jia Huang, Ping Huang, Yongnan Liu, Xiaoling Wang, Gaoqiang Liu

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Evidence for a major role of antisense RNAs in cyanobacterial gene regulation by Jens Georg, Björn Voß, Ingeborg Scholz, Jan Mitschke, Annegret Wilde, Wolfgang R Hess

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Disease signatures are robust across tissues and experiments by Joel T Dudley, Robert Tibshirani, Tarangini Deshpande, Atul J Butte

“…Although the established technical reproducibility of microarrays serves as a basis for meta‐analysis, pathophysiological reproducibility across experiments is not well established. …”
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p53‐repressed miRNAs are involved with E2F in a feed‐forward loop promoting proliferation by Ran Brosh, Reut Shalgi, Atar Liran, Gilad Landan, Katya Korotayev, Giang Huong Nguyen, Espen Enerly, Hilde Johnsen, Yosef Buganim, Hilla Solomon, Ido Goldstein, Shalom Madar, Naomi Goldfinger, Anne‐Lise Børresen‐Dale, Doron Ginsberg, Curtis C Harris, Yitzhak Pilpel, Moshe Oren, Varda Rotter

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Tissue‐based quantitative proteomics to screen and identify the potential biomarkers for early recurrence/metastasis of esophageal squamous cell carcinoma by Xu‐Wei Cai, Wei‐Wei Yu, Wen Yu, Qin Zhang, Wen Feng, Mi‐Na Liu, Meng‐Hong Sun, Jia‐Qing Xiang, Ya‐Wei Zhang, Xiao‐Long Fu

“…Experiments showed that PHB2 could significantly promote the proliferation and cell invasion ability of human ESCC cell lines and the knockdown of PHB2 suppressed the phosphorylation level of AKT, as well as the expression of MMP9 and RAC1. PHB2 could predict the early metastasis of ESCC patients.…”
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Identification and validation of a novel autoantibody biomarker panel for differential diagnosis of pancreatic ductal adenocarcinoma by Metoboroghene O. Mowoe, Metoboroghene O. Mowoe, Hisham Allam, Joshua Nqada, Marc Bernon, Karan Gandhi, Sean Burmeister, Urda Kotze, Miriam Kahn, Christo Kloppers, Suba Dharshanan, Zafirah Azween, Pamela Maimela, Paul Townsend, Eduard Jonas, Jonathan M. Blackburn, Jonathan M. Blackburn

“…Autoantibodies (AAbs) in principle make attractive biomarkers as they arise early in disease, report on disease-associated perturbations in cellular proteomes, and are static in response to other common stimuli, yet are measurable in the periphery, potentially well in advance of the onset of clinical symptoms.MethodsHere, we used high-throughput, custom cancer antigen microarrays to identify a clinically relevant autoantibody biomarker combination able to differentially detect PDAC. …”
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The antibody repertoire of autoimmune sensory neuronopathies targets pathways of the innate and adaptive immune system. An autoantigenomic approach by Christian P. Moritz, Yannick Tholance, Nadia Boutahar, Coralie Borowczyk, Anne-Emmanuelle Berger, Stéphane Paul, Jean-Christophe Antoine, Jean-Philippe Camdessanché

“…To investigate the humoral autoantibody repertoire in autoimmune SNN, we conducted a retrospective cohort study using large Human Proteome-wide protein microarrays (HuProt 3.1, HuProt 4.0, ProtoArrays). We specifically analyzed immune system pathways targeted within the autoantigen repertoire (the autoantigenome). …”
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