Decoding the prognostic landscape of LUAD: the interplay between N6-methyladenosine modification and immune microenvironment by Quan Chen, Quan Chen, Weijun Wan, Qing Zhao, Juan Li, Juan Li, Yanli Xiong, Yanli Xiong, Yuchuan Yuan, Lu Tang, Xiaofeng Wu, Wei Xing, Wei Guo, Di Lu, Luoquan Ao, Xiang Xu, Xiang Xu, Xiang Xu, Xiang Ao, Xiang Ao, Xiang Ao

“…A risk score model was constructed using least absolute shrinkage and selection operator regression and validated in two independent cohorts and LUAD tissue microarrays. …”
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MaGIC: a program to generate targeted marker sets for genome-wide association studies by Claire L. Simpson, Valerie K. Hansen, Pak C. Sham, Andrew Collins, John F. Powell, Ammar Al-Chalabi

“…High-throughput genotyping technologies such as DNA pooling and DNA microarrays mean that whole-genome screens are now practical for complex disease gene discovery using association studies. …”
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Identification of vascular and hematopoietic genes downstream of etsrp by deep sequencing in zebrafish. by Gustavo Gomez, Jae-Hyung Lee, Matthew B Veldman, Jing Lu, Xinshu Xiao, Shuo Lin

“…Expression studies of 50 selected candidate genes from this dataset resulted in the identification of 39 new genes that are expressed in vascular cells. …”
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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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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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Applicability of epigenetic age models to next-generation methylation arrays by Leonardo D. Garma, Miguel Quintela-Fandino

“…As new methylation microarrays are developed and older models discontinued, existing epigenetic clocks might become obsolete. …”
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The transcription factor SOX18 regulates the expression of matrix metalloproteinase 7 and guidance molecules in human endothelial cells. by Martina Hoeth, Heide Niederleithner, Renate Hofer-Warbinek, Martin Bilban, Herbert Mayer, Ulrike Resch, Christof Lemberger, Oswald Wagner, Erhard Hofer, Peter Petzelbauer, Rainer de Martin

“…<h4>Methodology/principal findings</h4>SOX18 was expressed in HUVEC using a recombinant adenoviral vector and the altered gene expression profile was analyzed using microarrays. Expression of several regulated candidate SOX18 target genes was verified by real-time PCR. …”
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The Maestro (Mro) gene is dispensable for normal sexual development and fertility in mice. by Lee Smith, John Willan, Nick Warr, Frances A Brook, Michael Cheeseman, Richard Sharpe, Pam Siggers, Andy Greenfield

“…We have previously used DNA microarrays to screen for novel genes controlling the developmental fate of the indifferent embryonic mouse gonad. …”
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Comprehensive analysis of microRNA expression profile in malignant glioma tissues by Monika Piwecka, Katarzyna Rolle, Agnieszka Belter, Anna Maria Barciszewska, Marek Żywicki, Marcin Michalak, Stanisław Nowak, Mirosława Z. Naskręt-Barciszewska, Jan Barciszewski

“…We investigated the global miRNA profile of malignant glioma tissues with miRNA microarrays, deep sequencing and meta‐analysis. We selected miRNAs that were most frequently deregulated in glioblastoma tissues, as well as in peritumoral areas, in comparison with normal human brain. …”
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A nomogram for predicting 3-year total weight loss percentage following LSG: insights from visceral adipose tissue inflammatory methylation sites by Zhehong Li, Liang Wang, Zheng Wang, Qiqige Wuyun, Buhe Amin, Dongbo Lian, Guangzhong Xu, Nengwei Zhang, Dezhong Wang

“…Comparative analyses of 850K methylation microarrays from VAT samples were performed to identify methylation sites associated with INF-related genes. …”
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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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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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In vitro methodologies to evaluate nanocarriers for cancer treatment: where are we? by Giovanna Cassone Salata, Camila Megumi Hirokawa, Giovanna Barros de Melo, Isabella Draszesski Malagó, Jessica Ribeiro Nunes, Julia Sapienza Passos, Regina Gomes Daré, Luciana B. Lopes

“…Abstract Cancer treatment continues to face significant challenges, including lack of selectivity, systemic toxicity, and the adaptive resistance mechanisms of cancer cells, which limit the effectiveness of conventional therapies. …”
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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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Hsa_circ_0000423 promotes colorectal cancer EMT and immune escape by competitive adsorption of miR-369-3p mediating CCND1 expression by TianFu Huang, KaiHai Jiang, LinTao Li, GuangSheng Li, YuSheng Cao, XuSen Huang

“…Cell proliferation was measured by MTT and colony formation assay assays, apoptosis was detected by flow cytometry, migration and invasion were detected by Transwell, and expression of EMT-related proteins was detected by Western Blot. …”
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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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Interleukin-13 receptor alpha 2 expression in tumor cells is associated with reduced disease-free survival in patients with luminal subtype invasive breast cancer by Hee Jung Kwon, Jung Eun Choi, Young Kyung Bae

“…Interleukin-13 receptor alpha 2 expressions were assessed by immunohistochemistry in tissue microarrays of 1283 invasive breast cancer samples, and associations between these expressions and clinicopathological variables and clinical outcomes were investigated. …”
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