miR-4780 Derived from N2-Like Neutrophil Exosome Aggravates Epithelial-Mesenchymal Transition and Angiogenesis in Colorectal Cancer by Liang Wang, Yuqiang Shan, Sixin Zheng, Jiangtao Li, Peng Cui

“…In our results, we found that neutrophils were enriched in CRC tumor tissue and that CD11b expression correlated with tumor site and serous membrane invasion. …”
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Integrative bioinformatics analysis and experimental validation of key biomarkers driving the progression of cirrhotic portal hypertension by Meilin Li, Lilin Jiang, Yunrui Ru, Zhonghua Lu, Peng Gu

“…The aim of this study was to identify hub genes for predicting persistent progression of portal hypertension in patients with liver cirrhosis. Methods Related microarray datasets were obtained from the Gene Expression Omnibus database. …”
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Identification and validation of hub gene TNFAIP6 of fibroblast-like synoviocytes in rheumatoid arthritis by LEI Lei, LYU Yuxin, ZHANG Jing

“…Methods‍　‍Four independent synovial tissue microarray transcriptome sequencing datasets and one single cell sequencing dataset were downloaded from the Gene Expression Omnibus (GEO) database, and the hub gene of RA fibroblast-like synovial cells was identified by differential gene analysis, weighted gene co-expression network analysis (WGCNA) and single-cell sequencing data analysis. …”
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ALDOB is a prognostic biomarker and a potential immunotherapy target for clear cell renal cell carcinoma by Wu Xu, Dali Wu, Cuilian Li, Lingfei Yan, Bo Peng, Yang Luo, Dawei Liu, Qing Li, Tao Wang

“…Immunohistochemistry (IHC) was applied to identify the ALDOB level in a tissue microarray. Results The expression of ALDOB demonstrated a strong association with pathologic T stage, pathologic N stage, pathologic M stage, histologic grade, and gender. …”
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Endothelial periostin regulates vascular remodeling by promoting endothelial dysfunction in pulmonary arterial hypertension by Dawn Lee, Heeyoung Lee, Ha-neul Jo, Eunsik Yun, Byung Su Kwon, Jongmin Kim, Aram Lee

“…Here, we demonstrated that POSTN upregulation correlates with PAH by analyzing a public microarray conducted on the lung tissues of patients with PAH and biological experimental results from in vivo and in vitro models. …”
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EsoDetect: computational validation and algorithm development of a novel diagnostic and prognostic tool for dysplasia in Barrett’s esophagus by Migla Miskinyte, Benilde Pondeca, José B. Pereira-Leal, Joana Cardoso

“…Specifically, for the diagnostic application, three RNAseq datasets were employed, while for the prognostic application, nine microarray datasets were identified, and 25 previously described genes were validated. …”
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Molecular Signatures of Recurrent Hepatocellular Carcinoma Secondary to Hepatitis C Virus following Liver Transplantation by Trina Das, Deborah L. Diamond, Matthew Yeh, Sajida Hassan, Janine T. Bryan, Jorge D. Reyes, James D. Perkins

“…Two groups of patients were selected, one including patients with HCV who developed HCC recurrence (HCC-R) ≤3 years from LT and the second group including patients with HCV who did not have recurrent HCC (HCC-NR). Microarray analysis containing more than 29,000 known genes was performed on formalin-fixed-paraffin-embedded (FFPE) liver tissue from explanted livers. …”
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Methylomics of breast cancer: Seeking epimarkers in peripheral blood of young subjects by Golnaz Khakpour, Mehrdad Noruzinia, Pantea Izadi, Fatemeh Karami, Mohammad Ahmadvand, Ramin Heshmat, Mahsa M Amoli, Javad Tavakkoly-Bazzaz

“…In this way, methylated DNA immunoprecipitation microarray (MeDIP-chip) was performed on DNA samples isolated from white blood cells of 30 breast cancer patients compared to 30 healthy controls. …”
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The proteomics of colorectal cancer: identification of a protein signature associated with prognosis. by Donna O'Dwyer, Lynda D Ralton, Aisling O'Shea, Graeme I Murray

“…Fifteen proteins that showed increased expression were validated by immunohistochemistry using a well characterised colorectal cancer tissue microarray containing 515 primary colorectal cancer, 224 lymph node metastasis and 50 normal colonic mucosal samples. …”
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Identification of circRNA Expression Profile and Potential Systemic Immune Imbalance Modulation in Premature Rupture of Membranes by Dongni Huang, Yuxin Ran, Ruixin Chen, Jie He, Nanlin Yin, Hongbo Qi

“…In this study, we displayed the expression profiles of circRNAs and mRNAs in plasma and fetal membranes of PROM and normal control (NC) groups based on circRNA microarray, the Gene Expression Omnibus database, and NCBI’s Sequence Read Archive. …”
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CDK5 Regulates Paclitaxel Sensitivity in Ovarian Cancer Cells by Modulating AKT Activation, p21Cip1- and p27Kip1-Mediated G1 Cell Cycle Arrest and Apoptosis. by Shu Zhang, Zhen Lu, Weiqun Mao, Ahmed A Ahmed, Hailing Yang, Jinhua Zhou, Nicholas Jennings, Cristian Rodriguez-Aguayo, Gabriel Lopez-Berestein, Roberto Miranda, Wei Qiao, Veera Baladandayuthapani, Zongfang Li, Anil K Sood, Jinsong Liu, Xiao-Feng Le, Robert C Bast

“…CDK5 protein was measured by immunohistochemical staining of an ovarian cancer tissue microarray to correlate CDK5 expression with overall patient survival. …”
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Deep sleep and parietal cortex gene expression changes are related to cognitive deficits with age. by Heather M Buechel, Jelena Popovic, James L Searcy, Nada M Porter, Olivier Thibault, Eric M Blalock

“…<h4>Conclusions</h4>The F344 rat appears to serve as a reasonable model for some common sleep architecture and cognitive changes seen with age in humans, including the cognitively disrupting influence of active period deep sleep. Microarray analysis suggests that the processes engaged by this sleep are consistent with its function. …”
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Overexpression of Testes-Specific Protease 50 (TSP50) Predicts Poor Prognosis in Patients with Gastric Cancer by Fang Liu, Qinghua Cao, Ni Liu, Changzhao Li, Changxuan You, Chuanxin Liu, Ling Xue, Rongcheng Luo

“…Immunohistochemistry (IHC) analysis of TSP50 was performed on a tissue microarray (TMA) containing 334 primary gastric cancers. …”
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Haplotype Analysis of Interleukin-8 Gene Polymorphisms in Chronic and Aggressive Periodontitis by Petra Borilova Linhartova, Jan Vokurka, Hana Poskerova, Antonin Fassmann, Lydie Izakovicova Holla

“…Subgingival bacterial colonization was investigated by the DNA-microarray detection kit in a subgroup of subjects (N=247). …”
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Machine learning-based single-sample molecular classifier for cancer grading by Zoia Antysheva, Nikita Kotlov, Mariia V. Guryleva, Ivan Valiev, Viktor Svekolkin, Anna Belozerova, Sheila T. Yong, Dmitry Tabakov, Alexander Bagaev, Vladimir Kushnarev

“…While low- and high-grade tumors are predictive of patient survival for many cancers, tumors of intermediate morphological grades are considered unreliable due to interobserver variability and thus do not have clear prognostic significance. To address this issue, we devised a molecular-based classifier that uses gene expression data from RNA sequencing (RNA-seq) or microarray profiling to predict high- and low-grade risk groups for breast, lung, and renal cancers. …”
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Comparative analysis of proteome and transcriptome variation in mouse. by Anatole Ghazalpour, Brian Bennett, Vladislav A Petyuk, Luz Orozco, Raffi Hagopian, Imran N Mungrue, Charles R Farber, Janet Sinsheimer, Hyun M Kang, Nicholas Furlotte, Christopher C Park, Ping-Zi Wen, Heather Brewer, Karl Weitz, David G Camp, Calvin Pan, Roumyana Yordanova, Isaac Neuhaus, Charles Tilford, Nathan Siemers, Peter Gargalovic, Eleazar Eskin, Todd Kirchgessner, Desmond J Smith, Richard D Smith, Aldons J Lusis

“…We have examined this issue using a genetic approach in which natural variations were used to perturb both transcript levels and protein levels among inbred strains of mice. …”
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Inference of cell type content from human brain transcriptomic datasets illuminates the effects of age, manner of death, dissection, and psychiatric diagnosis. by Megan Hastings Hagenauer, Anton Schulmann, Jun Z Li, Marquis P Vawter, David M Walsh, Robert C Thompson, Cortney A Turner, William E Bunney, Richard M Myers, Jack D Barchas, Alan F Schatzberg, Stanley J Watson, Huda Akil

“…Despite this, transcriptomic analyses of the human brain have typically been conducted using macro-dissected tissue due to the difficulty of performing single-cell type analyses with donated post-mortem brains. …”
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PODO447: a novel antibody to a tumor-restricted epitope on the cancer antigen podocalyxin by Blake Gilks, Martin Köbel, Diana Canals Hernaez, Michael R Hughes, Pamela Dean, Peter Bergqvist, Ismael Samudio, Ola Blixt, Katharina Wiedemeyer, Yicong Li, Chris Bond, Eric Cruz, Calvin D Roskelley, Kelly M McNagny

“…Tumor specificity was assessed using primary normal tissue and an ovarian cancer tissue microarray (TMA). …”
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Effects of matrix metalloproteinase inhibition in cultured human Tenon’s capsule fibroblasts by Na Hyun Kim, Kyung Eun Han, Roo Min Jun, Seongsoo Sohn, Changwon Kee, Wool Suh

“…Abstract Background This study aimed to compare the characteristics of anterior and posterior human Tenon’s capsule fibroblasts and determine the effect of matrix metalloproteinase (MMP) inhibition on cultured human Tenon’s capsule fibroblasts. Methods Tissues obtained from the anterior and posterior Tenon’s capsules were partially incised, cultured, and subjected to microarray analysis. …”
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The ortholog conjecture is untestable by the current gene ontology but is supported by RNA sequencing data. by Xiaoshu Chen, Jianzhi Zhang

“…A recent study, however, challenged the ortholog conjecture on the basis of experimentally derived Gene Ontology (GO) annotations and microarray gene expression data in human and mouse. …”
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