PGC-1alpha-responsive genes involved in oxidative phosphorylation are coordinately downregulated in human diabetes. by Mootha, V, Lindgren, C, Eriksson, K, Subramanian, A, Sihag, S, Lehar, J, Puigserver, P, Carlsson, E, Ridderstråle, M, Laurila, E, Houstis, N, Daly, M, Patterson, N, Mesirov, J, Golub, T, Tamayo, P, Spiegelman, B, Lander, E, Hirschhorn, J, Altshuler, D, Groop, L

“…DNA microarrays can be used to identify gene expression changes characteristic of human disease. …”

DNA-Chips data processing and analysis by Tankovics, Edin, Wasito, Ito

“…Recently devel oped for genome analysis, DNA microarrays, also known as gene arra ys or gene chips, are capable of determining the gene expression levels of thousands of genes simultaneously. …”

Long read sequencing on its way to the routine diagnostics of genetic diseases by Giulia Olivucci, Giulia Olivucci, Emanuela Iovino, Giovanni Innella, Giovanni Innella, Daniela Turchetti, Daniela Turchetti, Tommaso Pippucci, Pamela Magini

“…At chromosome side, from cytogenetic techniques evaluating number and gross structural defects to genomic microarrays detecting cryptic copy number variants, and at molecular level, from Sanger method studying the nucleotide sequence of single genes to the high-throughput next-generation sequencing (NGS) technologies, resolution and sensitivity progressively increased expanding considerably the range of detectable DNA anomalies and alongside of Mendelian disorders with known genetic causes. …”
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Tumors carrying BRAF-mutations over-express NAMPT that is genetically amplified and possesses oncogenic properties by Audrito, Valentina, Moiso, Enrico, Ugolini, Filippo, Messana, Vincenzo G., Brandimarte, Lorenzo, Manfredonia, Ilaria, Bianchi, Simonetta, De Logu, Francesco, Nassini, Romina, Szumera-Ciećkiewicz, Anna, Taverna, Daniela, Massi, Daniela, Deaglio, Silvia

“…Methods Exploiting the TCGA database and a collection of MM and THCA tissue microarrays we studied the association between BRAF mutations and NAMPT expression. …”
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Studies on the molecular mechanism of T cell triggering and detection and characterization of antigen-specific T cells by Stone, Jennifer Drignat, 1976-

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Integrated microbioreactors for rapid screening and analysis of bioprocesses by Zanzotto, Andrea, 1975-

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DNA hybridization : fundamental studies and applications in directed assembly by Bajaj, Manish G. (Manish Gopal)

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Carcinoma da mama de tipo basal. by Fátima Silva, Sílvia Carvalho, Fernanda Milanezi, Fernando C Schmitt

“…Studies using cDNA microarrays have recently led to the re-classification of invasive breast carcinomas, based on their molecular signature, into three main groups: luminal; HER2 (Human Epidermal Receptor 2) overexpressing, and basal-like. …”
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Characterization of low pathogenic avian influenza viruses subtype H5 isolated in Singapore and RNA interference as an antiviral strategy. by Yeo, Dawn Su Yin.

“…Host responses to LPAIV infection were profiled and compared using microarrays and we found that the host gene expression was unique to each virus in each cell line, with the strongest antiviral response to the LPAIVs observed in human cells. …”
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Superhydrophilic–superhydrophobic patterned surfaces: From simplified fabrication to emerging applications by Hao Chen, Xiaoping Li, Dachao Li

“…Such surfaces have many advantages, including controllable wettability, enrichment ability, accessibility, and the ability to manipulate and pattern water droplets, and they offer new functionalities and possibilities for a wide variety of emerging applications, such as microarrays, biomedical assays, microfluidics, and environmental protection. …”
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The Genetics of Intellectual Disability by Sandra Jansen, Lisenka E. L. M. Vissers, Bert B. A. de Vries

“…Over the past decades, improvements in genetic diagnostic technologies and strategies have led to these causes being more and more detectable: from cytogenetic analysis in 1959, we moved in the first decade of the 21st century from genomic microarrays with a diagnostic yield of ~20% to next-generation sequencing platforms with a yield of up to 60%. …”
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Unique reporter-based sensor platforms to monitor signalling in cells. by Meesbah Jiwaji, Rónán Daly, Abdullah Gibriel, Gráinne Barkess, Pauline McLean, Jingli Yang, Kshama Pansare, Sarah Cumming, Alisha McLauchlan, Piotr J Kamola, Musab S Bhutta, Adam G West, Katherine L West, Walter Kolch, Mark A Girolami, Andrew R Pitt

“…The methodology uses two robust and easily accessible detection platforms; quantitative real-time PCR for quantitative analysis and DNA microarrays for parallel, higher throughput analysis.We test the specificity of the detection platforms with ten inducers and independently validate the transcription factor activation.We report a methodology for the multiplexed study of transcription factor activation in mammalian cells that is direct and not theoretically limited by the number of available reporters.…”
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Evaluation of pediatric epigenetic clocks across multiple tissues by Fang Fang, Linran Zhou, Wei Perng, Carmen J. Marsit, Anna K. Knight, Andres Cardenas, Max T. Aung, Marie-France Hivert, Izzuddin M. Aris, Jaclyn M. Goodrich, Alicia K. Smith, Abigail Gaylord, Rebecca C. Fry, Emily Oken, George O’Connor, Douglas M. Ruden, Leonardo Trasande, Julie B. Herbstman, Carlos A. Camargo, Nicole R. Bush, Anne L. Dunlop, Dana M. Dabelea, Margaret R. Karagas, Carrie V. Breton, Carole Ober, Todd M. Everson, Grier P. Page, Christine Ladd-Acosta, on behalf of program collaborators for Environmental influences on Child Health Outcomes

“…Results Our study used data from seven tissue types on three DNA methylation profiling microarrays and found that the Knight and Bohlin clocks performed similarly for blood cells, while the Lee clock was superior for placental samples. …”
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High Prevalence of 5T4/Trophoblast Glycoprotein in Soft Tissue Sarcomas by Patrick Groothuis, Nicola Penel, Antoine Italiano, Nuria Kotecki, Fred Dijcks, Wim Dokter

“…The expression of 5T4/trophoblast glycoprotein was evaluated in several histological subtypes of soft tissue sarcoma (STS) to determine whether the prevalence and level of expression of this membrane-associated glycoprotein is sufficient for use in targeted therapies. Tumor tissue microarrays containing cores from different histological subtypes of STS were stained using a standardized immunohistochemical staining method to detect 5T4; the level of staining was assessed using a semi-quantitative scoring method. …”
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Survey of variation in human transcription factors reveals prevalent DNA binding changes by Vedenko, A., Kurland, J. V., Rogers, J. M., Gisselbrecht, S. S., Woodard, J., Mariani, L., Kock, K. H., Inukai, S., Siggers, T., Shokri, L., Gordan, R., Sahni, N., Cotsapas, C., Hao, T., Yi, S., Vidal, M., Hill, D. E., Barrera, Luis Alberto, Rossin, Elizabeth, Kellis, Manolis, Daly, Mark J., Bulyk, Martha L.

“…We developed a computational, structure-based approach to evaluate TF variants for their impact on DNA binding activity and used universal protein-binding microarrays to assay sequence-specific DNA binding activity across 41 reference and 117 variant alleles found in individuals of diverse ancestries and families with Mendelian diseases. …”
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Systems analysis of EGF receptor signaling dynamics with microwestern arrays by Ciaccio, Mark F, Wagner, Joel P, Chuu, Chih-Pin, Lauffenburger, Douglas A, Jones, Richard B

“…We describe microwestern arrays, which enable quantitative, sensitive and high-throughput assessment of protein abundance and modifications after electrophoretic separation of microarrayed cell lysates. This method allowed us to measure 91 phosphosites on 67 proteins at six time points after stimulation with five epidermal growth factor (EGF) concentrations in A431 human carcinoma cells. …”
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Ruler Arrays Reveal Haploid Genomic Structural Variation by Gifford, David K., Rolfe, Philip Alexander, Fink, Gerald R., Bernstein, Douglas A., Grisafi, Paula

“…The method combines a sample preparation protocol, tiling genomic microarrays, and a new computational analysis. The analysis of ruler array data from two genomic samples enables the identification of structural variation between the samples. …”
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A wave of nascent transcription on activated human genes. by Wada, Y, Ohta, Y, Xu, M, Tsutsumi, S, Minami, T, Inoue, K, Komura, D, Kitakami, J, Oshida, N, Papantonis, A, Izumi, A, Kobayashi, M, Meguro, H, Kanki, Y, Mimura, I, Yamamoto, K, Mataki, C, Hamakubo, T, Shirahige, K, Aburatani, H, Kimura, H, Kodama, T, Cook, P, Ihara, S

“…To obtain a comprehensive view of a single transcription cycle, we switched on transcription of five long human genes (>100 kbp) with tumor necrosis factor-alpha (TNFalpha) and monitored (using microarrays, RNA fluorescence in situ hybridization, and chromatin immunoprecipitation) the appearance of nascent RNA, changes in binding of Pol II and two insulators (the cohesin subunit RAD21 and the CCCTC-binding factor CTCF), and modifications of histone H3. …”

Principles of dimer-specific gene regulation revealed by a comprehensive characterization of NF-κB family DNA binding. by Siggers, T, Chang, AB, Teixeira, A, Wong, D, Williams, K, Ahmed, B, Ragoussis, J, Udalova, I, Smale, S, Bulyk, M

“…To more thoroughly investigate these dimer-specific differences, we combined protein-binding microarrays and surface plasmon resonance to evaluate DNA sites recognized by eight different NF-κB dimers. …”

Clinicopathological value of the upregulation of cyclin-dependent kinases regulatory subunit 2 in osteosarcoma by Chaohua Mo, Yanxing Wu, Jie Ma, Le Xie, Yingxin Huang, Yuanyuan Xu, Huizhi Peng, Zengwei Chen, Min Zeng, Rongjun Mao

“…The standard mean deviation (SMD) was calculated based on in-house IHC and tissue microarrays, and exterior high-throughput datasets for further verification of CKS2 expression trend in OS. …”
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