Identification and analysis of genetic variations in pri-miRNAs expressed specifically or at a high level in sheep skeletal muscle. by Wei Zhang, Limin Wang, Ping Zhou, Guangchao Song, Min Shen, Shangquan Gan, Guoqing Shi

“…In this study, we used microarrays to detect 261 miRNAs that are expressed in sheep skeletal muscle. …”
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Dosage compensation in the mouse balances up-regulation and silencing of X-linked genes. by Hong Lin, Vibhor Gupta, Matthew D Vermilyea, Francesco Falciani, Jeannie T Lee, Laura P O'Neill, Bryan M Turner

“…Embryonic stem (ES) cells derived from the ICM of female mice have two active X chromosomes, one of which is inactivated as the cells differentiate in culture, providing a powerful model system to study the dynamics of X inactivation. Using microarrays to assay expression of X-linked genes in undifferentiated female and male mouse ES cells, we detect global up-regulation of expression (1.4- to 1.6-fold) from the active X chromosomes, relative to autosomes. …”
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Accurate distinction of pathogenic from benign CNVs in mental retardation. by Jayne Y Hehir-Kwa, Nienke Wieskamp, Caleb Webber, Rolph Pfundt, Han G Brunner, Christian Gilissen, Bert B A de Vries, Chris P Ponting, Joris A Veltman

“…Hundreds of CNVs can be detected in any individual genome using genomic microarrays or whole genome sequencing technology, but their phenotypic consequences are still poorly understood. …”
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Re-evaluation of the relationship between PrPc expression and patient prognosis in primary esophageal squamous cell carcinoma and primary hepatocellular carcinoma by Cheng Zhang, Fanlei Ran, Lei Du, Yang Cao, Hong Chen, Quan Chen, Lijun Bi, Haiying Hang

“…We used flow cytometry to detect PrPc expression in ESCC and HCC cell lines. …”
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Revealing new mouse epicardial cell markers through transcriptomics. by Lars Bochmann, Padmini Sarathchandra, Federica Mori, Enrique Lara-Pezzi, Domenico Lazzaro, Nadia Rosenthal

“…<h4>Methodology</h4>Using laser capture microscopy, we isolated the epicardial layer from the adult murine heart before or after cardiac infarction in wildtype mice and mice expressing a transgenic IGF-1 propeptide (mIGF-1) that enhances cardiac repair, and analyzed the transcription profile using DNA microarrays.<h4>Principal findings</h4>Expression of epithelial genes such as basonuclin, dermokine, and glycoprotein M6A are highly enriched in the epicardial layer, which maintains expression of selected embryonic genes involved in epicardial development in mIGF-1 transgenic hearts. …”
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Multi-Scale Genomic, Transcriptomic and Proteomic Analysis of Colorectal Cancer Cell Lines to Identify Novel Biomarkers. by Romina Briffa, Inhwa Um, Dana Faratian, Ying Zhou, Arran K Turnbull, Simon P Langdon, David J Harrison

“…Selecting colorectal cancer (CRC) patients likely to respond to therapy remains a clinical challenge. …”
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Nonlinear Quantitative Radiation Sensitivity Prediction Model Based on NCI-60 Cancer Cell Lines by Chunying Zhang, Luc Girard, Amit Das, Sun Chen, Guangqiang Zheng, Kai Song

“…Important radiation therapy (RT) related genes were selected by significance analysis of microarrays (SAM). …”
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Classification of gliomas based on genome-wide DNA methylation profiles and immunohistochemical analysis: a short study by Olga Taryma-Leśniak, Kamil Buczkowski, Tomasz Klepinowski, Maciej Jankowski, Szymon Retfiński, Bartłomiej Sagan, Leszek Sagan, Ewa Szutowicz, Kacper Winiarski, Marta Masztalewicz, Przemysław Nowacki, Marta Sobalska-Kwapis, Dominik Strapagiel, Wojciech Kloc, Beata Lipska-Ziętkiewicz, Ewa Iżycka-Świeszewska, Tomasz K. Wojdacz

“…The formalin-fixed paraffin-embedded (FFPE) and freshly frozen (FF) samples were analyzed using Infinium Methylation-EPIC microarrays. The diagnosis was changed in two cases, and two other cases were classified as control tissue due to the low content of neoplastic cells in examined frozen samples. …”
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Extended receptor repertoire of an adenovirus associated with human obesity. by A Manuel Liaci, Naresh Chandra, Sharvani Munender Vodnala, Michael Strebl, Pravin Kumar, Vanessa Pfenning, Paul Bachmann, Rémi Caraballo, Wengang Chai, Emil Johansson, Mikael Elofsson, Ten Feizi, Yan Liu, Thilo Stehle, Niklas Arnberg

“…To date, this sialic acid variant has not been detected in humans, although it can be synthesized by various animal species, including a range of domestic and livestock animals. …”
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p53 activation by knockdown technologies. by Mara E Robu, Jon D Larson, Aidas Nasevicius, Soraya Beiraghi, Charles Brenner, Steven A Farber, Stephen C Ekker

“…The major off-targeting effect is mediated through p53 activation, as detected through the transferase-mediated dUTP nick end labeling assay, acridine orange, and p21 transcriptional activation assays. …”
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Biomarker-Based Nomogram to Predict Neoadjuvant Chemotherapy Response in Muscle-Invasive Bladder Cancer by Meritxell Pérez, Juan José Lozano, Mercedes Ingelmo-Torres, Montserrat Domenech, Caterina Fernández Ramón, J. Alfred Witjes, Antoine G. van der Heijden, Maria José Requena, Antonio Coy, Ricard Calderon, Begoña Mellado, Antonio Alcaraz, Antoni Vilaseca, Maria J. Ribal

“…Gene expression patterns were analysed in 34 samples from transurethral resection of the bladder (TURB) using Illumina microarrays. The expression levels of 45 selected differentially expressed genes between responders and non-responders to NAC were validated by quantitative PCR in an independent cohort of 157 patients. …”
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Unveiling the impact of C15orf48 on non-small cell lung cancer through NF-kappa B signaling by Wei Wang, Lei Zhang, Ansheng Wang, Xiaohua Wang, Weidong Wu

“…Immunohistochemical staining was used to detect C15orf48 expression in tissue microarrays. …”
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The Impact of Antenatal and Postnatal Factors on the Development of the Pulmonary Microvasculature in Preterm Infants by Raluca Chirculescu, Ruxandra Viorica Stănculescu, Paul Cristian Bălănescu, Gheorghe Peltecu

“…<b>Methods</b>: The investigation analyzed 67 cases of preterm infants, whose lifespans ranged from 1 day to 149 days. After selecting the cases from the autopsy database, two lung tissue microarrays were created. …”
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Identification of components associated with thermal acclimation of photosystem II in Synechocystis sp. PCC6803. by John G Rowland, Xin Pang, Iwane Suzuki, Norio Murata, William J Simon, Antoni R Slabas

“…<h4>Methodology/findings</h4>We have analysed gene expression using whole-genome microarrays and monitored alterations in physiology during acclimation of PSII to elevated growth temperature in Synechocystis sp. …”
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Optical genome mapping with whole genome sequencing identifies complex chromosomal structural variations in acute leukemia by Meng-Ju Melody Tsai, Meng-Ju Melody Tsai, Hsiao-Jung Kao, Hsiao-Huei Chen, Chih-Hsiang Yu, Yin-Hsiu Chien, Wuh-Liang Hwu, Wuh-Liang Hwu, Wuh-Liang Hwu, Pui-Yan Kwok, Pui-Yan Kwok, Pui-Yan Kwok, Ni-Chung Lee, Yung-Li Yang, Yung-Li Yang, Yung-Li Yang

“…However, many complex SVs cannot be identified by conventional tools, including karyotyping, fluorescence in situ hybridization, microarrays, and multiplex ligation-dependent probe amplification (MLPA).MethodsOptical genome mapping (OGM) and whole genome sequencing (WGS) were employed to analyze five leukemia samples with SVs detected by karyotyping, MLPA, and RNA sequencing (RNA-seq). …”
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C20orf27 promotes hepatocellular carcinoma progression via NT5E by Yu He, Wen Zhang, Ming Chang, Yuanjie Chen, Risheng Lin, Xinyu Ye, Wei Mao, Yubin Lu, Yi Lu, Erbao Chen

“…Immunohistochemistry analysis of tissue microarrays suggested that NT5E expression was significantly associated with C20orf27 levels. …”
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Proteomic and transcriptomic study of brain microvessels in neonatal and adult mice. by Baptiste Porte, Clémence Chatelain, Julie Hardouin, Céline Derambure, Yasmine Zerdoumi, Michèle Hauchecorne, Nicolas Dupré, Soumeya Bekri, Bruno Gonzalez, Stéphane Marret, Pascal Cosette, Philippe Leroux

“…In parallel, comparative transcript levels were obtained using RNA hybridization microarrays and enriched biological pathways were extracted from genes exhibiting at least a two-fold change in expression. …”
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A high-content small molecule screen identifies sensitivity of glioblastoma stem cells to inhibition of polo-like kinase 1. by Davide Danovi, Amos Folarin, Sabine Gogolok, Christine Ender, Ahmed M O Elbatsh, Pär G Engström, Stefan H Stricker, Sladjana Gagrica, Ana Georgian, Ding Yu, Kin Pong U, Kevin J Harvey, Patrizia Ferretti, Patrick J Paddison, Jane E Preston, N Joan Abbott, Paul Bertone, Austin Smith, Steven M Pollard

“…We used live-cell imaging and high content image analysis tools and identified JNJ-10198409 (J101) as an agent that induces mitotic arrest at prometaphase in GNS cells but not NS cells. Antibody microarrays and kinase profiling suggested that J101 responses are triggered by suppression of the active phosphorylated form of polo-like kinase 1 (Plk1) (phospho T210), with resultant spindle defects and arrest at prometaphase. …”
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Advanced strategies for screening and identifying RNA-targeted small molecules: Bridging therapeutic potential and innovation by Zukela Ruzi, Daxiong Han, Kailibinuer Aierken

“…However, their dynamic nature and structural complexity have historically posed challenges in developing small molecules with high affinity and selectivity. In recent years, significant advancements in screening methodologies, such as high-throughput screening (HTS), small molecule microarrays (SMMs), and DNA-encoded libraries (DELs), have facilitated the identification of RNA-binding small molecules with enhanced specificity. …”
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Distinct roles of non-canonical poly(A) polymerases in RNA metabolism. by Salvatore San Paolo, Stepanka Vanacova, Luca Schenk, Tanja Scherrer, Diana Blank, Walter Keller, André P Gerber

“…In conclusion, our results suggest that paralogous TRAMP complexes have distinct RNA selectivities with functional implications in RNA surveillance as well as other RNA-related processes. …”
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