Upregulated Acute Systemic Inflammation-Related Genes based on Endotoxin Exposure Provide “Survival Benefit” or Create “High Risk of Death” in Leukaemia and Colon Cancer by Gizem Ayna Duran

“…In our study, survival analysis was performed to determine whether the upregulated genes triggered by endotoxins have hazardous effects on cancers or provide a survival benefit. …”
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Identification of RNA-binding protein genes associated with renal rejection and graft survival by Zhaozhong Zhong, Yongrong Ye, Liubing Xia, Ning Na

“…The aim of this study was to comprehensively analyze the expression of RPBs in renal rejection and use it to construct a robust prediction strategy for long-term graft survival. The microarray expression profiles used in this study were obtained from GEO database. …”
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Genome-Wide Analysis of PAPS1-Dependent Polyadenylation Identifies Novel Roles for Functionally Specialized Poly(A) Polymerases in Arabidopsis thaliana. by Christian Kappel, Gerda Trost, Hjördis Czesnick, Anna Ramming, Benjamin Kolbe, Son Lang Vi, Cláudia Bispo, Jörg D Becker, Cornelia de Moor, Michael Lenhard

“…When overlaying the PAPS1-dependent effects observed here with coexpression analysis based on independent microarray data, the two clusters of transcripts that are most closely coexpressed with PAPS1 show the strongest change in poly(A)-tail length and transcript abundance in paps1 mutants in our analysis. …”
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MicroRNA biomarkers of type 2 diabetes: A protocol for corroborating evidence by computational genomics and meta-analyses. by Hongmei Zhu, Siu-Wai Leung

“…Multiple meta-analyses with restricted maximum-likelihood estimation and empirical Bayes estimation under the random-effects model will be conducted by metafor package in R. …”
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Maternal cocaine administration in mice alters DNA methylation and gene expression in hippocampal neurons of neonatal and prepubertal offspring. by Svetlana I Novikova, Fang He, Jie Bai, Nicholas J Cutrufello, Michael S Lidow, Ashiwel S Undieh

“…By P30, some of the cocaine-associated effects at P3 endured, reversed to opposite directions, or disappeared. …”
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Detection of host-derived sphingosine by Pseudomonas aeruginosa is important for survival in the murine lung. by Annette E LaBauve, Matthew J Wargo

“…The members of the SphR transcriptome were identified by microarray analyses, and DNA binding assays showed specific interaction of these promoters with SphR, which enabled us to determine the consensus SphR binding site. …”
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MyD88 deficiency alters expression of antimicrobial factors in mouse salivary glands. by Takeshi Into, Toshiya Takigawa, Shumpei Niida, Ken-ichiro Shibata

“…Thus, this study provides a detailed description of the effect of MyD88 deficiency on expression of several salivary antimicrobial factors in mice, illustrating the role for MyD88-mediated signaling in the innate immune defense in the oral cavity.…”
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Genetic variation and antioxidant response gene expression in the bronchial airway epithelium of smokers at risk for lung cancer. by Xuting Wang, Brian N Chorley, Gary S Pittman, Steven R Kleeberger, John Brothers, Gang Liu, Avrum Spira, Douglas A Bell

“…Prior microarray studies of smokers at high risk for lung cancer have demonstrated that heterogeneity in bronchial airway epithelial cell gene expression response to smoking can serve as an early diagnostic biomarker for lung cancer. …”
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Bioinformatics analysis of potential targets influencing the prognosis of OSCC by ZOU Xian, SONG Tao

“…[Objective:] To apply bioinformatics technology to screen differentially expressed genes (DEGs) in oral squamous cell carcinoma (OSCC) microarray data to further predict potential targets and prognostic genes. …”
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Exposing Optimal Feature Sets for Enhancing Machine Learning Performance by Hiba Mohammed Al-Marwai, Ghaleb H. Al-Gaphari, Mohammed Mohammed Zayed

“…The opposition based learning (OBL) technique is used to mitigate the risk of CSA converging towards local optima. To evaluate the effectiveness of our approach, we conduct experiments on benchmark microarray datasets from the ADNI database. …”
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ODSEI Chip: An Open 3D Microfluidic Platform for Studying Tumor Spheroid‐Endothelial Interactions by Jooyoung Ro, Junyoung Kim, Juhee Park, Yongjun Choi, Yoon‐Kyoung Cho

“…Herein, a novel open 3D‐microarray platform is presented for a spheroid‐endothelium interaction (ODSEI) chip, capable of arraying more than 1000 spheroids on top of the vasculature, compartmentalized for single spheroid‐level analysis of drug resistance, and allows for the extraction of specific spheroids for further analysis. …”
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RETRACTED ARTICLE: Molecular mechanism and diagnostic marker investigation of endoplasmic reticulum stress on periodontitis by Qianqian Sun, Enqiang Zhu

“…Methods The differentially expressed ERSGs (DE-ERSGs) were reveled based on periodontitis-related microarray dataset in Gene Expression Omnibus (GEO) database and 295 ERS in previous study, followed by a protein–protein interaction network construction. …”
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Extracellular vesicle-packaged miR-4253 secreted by cancer-associated fibroblasts facilitates cell proliferation in gastric cancer by inducing macrophage M2 polarization by Xinxing Duan, Xiong Yu, Jin Gan

“…Here, we investigated the effect of CAF-EVs on macrophage polarization in GC and the underlying mechanisms. …”
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Functional and transcriptional characterization of human embryonic stem cell-derived endothelial cells for treatment of myocardial infarction. by Zongjin Li, Kitchener D Wilson, Bryan Smith, Daniel L Kraft, Fangjun Jia, Mei Huang, Xiaoyan Xie, Robert C Robbins, Sanjiv S Gambhir, Irving L Weissman, Joseph C Wu

“…We investigated the transcriptional changes that occur during endothelial differentiation of hESCs using whole genome microarray, and compared to human umbilical vein endothelial cells (HUVECs). …”
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ZNF37A downregulation promotes TNFRSF6B expression and leads to therapeutic resistance to concurrent chemoradiotherapy in rectal cancer patients by Ying Huang, Jing Jin, Ningxin Ren, Hongxia Chen, Yan Qiao, Shuangmei Zou, Xin Wang, Linlin Zheng, Ye-Xiong Li, Wen Tan, Dongxin Lin

“…The identification a signature comprising a group of genes as markers of cancer response to chemoradiotherapy would be more appropriate and effective for predicting chemoradiotherapy efficacy. …”
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Inhibition of SOD1 trimerization is a novel drug target for ALS disease by Tae-Gyun Woo, Jin Han, Yuju Kim, Young jun Hwang, Mua Lee, So-mi Kang, Soyoung Park, Yeongseon Ji, Yeon-Ho Chung, Songyoung Baek, Eunbyeol Shin, Minju-Kim, Hyewon Jang, Yun-Jeong Shin, Yonghoon Kwon, Bae-Hoon Kim, Bum-Joon Park

“…To check the in vivo therapeutic effect of PRG-A-04, SOD1G93A−Tg mice were injected with PRG-A-04; then behavioral test, histological analysis and microarray were performed. …”
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Mechanisms of ag85a/b DNA vaccine conferred immunotherapy and recovery from Mycobacterium tuberculosis‐induced injury by Nan Wang, Yan Liang, Qianqian Ma, Jie Mi, Yong Xue, Yourong Yang, Lan Wang, Xueqiong Wu

“…The gene expression profiles were analyzed using gene microarray technology to obtain differentially expressed (DE) genes. …”
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USP7 promotes temozolomide resistance by stabilizing MGMT in glioblastoma by Jiabing Li, Xiaorong Feng, Zhaohui Liu, Yunfang Deng, Zhiming Sun, Bei Chen, Lihui Wu, Xiaolong Wang, Lin Miao, Liyuan Zeng, Lei Hu, Yuming He, Ying Sheng, Yue Liu, Yu Zhao

“…Inhibition or knockdown of USP7 reduces MGMT levels, as well as those of XPC, ALKBH2, and ALKBH3, impairs DNA repair capacity, and sensitizes GBM cells to TMZ, enabling effective treatment with reduced TMZ dosages. Clinically, tissue microarray analyses reveal that USP7 and MGMT co-overexpression in GBM correlates with poor patient survival. …”
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HSPA6 augments garlic extract-induced inhibition of proliferation, migration, and invasion of bladder cancer EJ cells; Implication for cell cycle dysregulation, signaling pathway a... by Seung-Shick Shin, Jun-Hui Song, Byungdoo Hwang, Dae-Hwa Noh, Sung Lyea Park, Won Tae Kim, Sung-Soo Park, Wun-Jae Kim, Sung-Kwon Moon

“…In addition, GE impeded the migration and invasion of EJ cells via inhibition of MMP-9 expression followed by decreased binding activities of AP-1, Sp-1, and NF-κB motifs. Based on microarray datasets, we selected Heat shock protein A6 (HSPA6) as the most up-regulated gene responsible for the inhibitory effects of GE. …”
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Interaction of Wnt Signaling with BMP/Smad Signaling during the Transition from Cell Proliferation to Myogenic Differentiation in Mouse Myoblast-Derived Cells by Kumiko Terada, Satomi Misao, Naoki Katase, Shin-ichiro Nishimatsu, Tsutomu Nohno

“…The BMP antagonist noggin effectively stimulated muscle differentiation through binding to endogenous BMPs, and the effect of noggin was enhanced by the presence of Wnt3a and Wnt4. …”
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