Identification and external validation of tumor DNA methylation panel for the recurrence risk stratification of stage II colon cancer by Tanwei Yuan, Dominic Edelmann, Víctor Moreno, Elisabeth Georgii, Lisa Barros de Andrade e Sousa, Helena Pelin, Xiaofeng Jiang, Jakob Nikolas Kather, Katrin E. Tagscherer, Wilfried Roth, Melanie Bewerunge-Hudler, Alexander Brobeil, Matthias Kloor, Hendrik Bläker, Hermann Brenner, Michael Hoffmeister

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Does Bilirubin Have a Causal Relationship With Vitiligo? A Mendelian Randomization Study and Bioinformatics Analysis by Xu D, Yin Y, Teng Y, Huang Y, Yu Y, Tao X, Fan Y, Ding X

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Bayesian weighted random forest for classification of high-dimensional genomics data by Oyebayo Ridwan Olaniran, Mohd Asrul A. Abdullah

“…Secondly, a new variable ranking procedure is developed and then hybridized with BWRCF to tackle the high-dimensionality issues. The performance of the proposed method is analyzed using simulated and real-life high-dimensional microarray datasets based on holdout accuracy and misclassification error rates. …”
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Clinical significance and gene prediction of a novel classification system based on tacrolimus concentration-to-dose ratio in the early post-liver transplant period by Junwei Fan, Junwei Fan, Peihao Wen, Liyun Yuan, Yan Xia, Shijie Hu, Xiaoqing Zhang, Zhihai Peng, Zhihai Peng

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Single Center Characterization of a Cohort of Salivary Gland Carcinomas by Ria Winkelmann, Maja Weißgerber, Peter J. Wild, Julia Bein, Maximilian Fleischmann, Melanie Demes, Panagiotis Balermpas, Andreas Loth, Katrin Bankov, Jens von der Grün

“…We aimed to characterize the cohort of salivary gland cancers in our institute and generate a tissue microarray (TMA) with clinical data available for immunohistochemical analysis. …”
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PLCH1 overexpression promotes breast cancer progression and predicts poor prognosis through the ERK1/2-EGR1 axis by Jing Li, Fenge Jiang, Congcong Wang, Ping Sun, Lei Song, Jiannan Liu

“…However, its specific role in breast cancer progression, its association with clinicopathological features, and its prognostic significance remain unclear.MethodsPLCH1 expression was analyzed across multiple tumor types using the TNMplot database, which integrates RNA-seq, microarray, and normalized data from The Cancer Genome Atlas (TCGA), Genotype-Tissue Expression (GTEx), and Gene Expression Omnibus (GEO), encompassing 40,442 tumor and 15,648 normal samples. …”
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DSN1 may predict poor prognosis of lower-grade glioma patients and be a potential target for immunotherapy by Yulong Jia, Meiling Liu, Han Liu, Wenjia Liang, Qingyun Zhu, Chao Wang, Yake Chen, Yanzheng Gao, Zhendong Liu, Xingbo Cheng

“…The expression levels of DSN1 mRNA and protein in LGG were substantially higher than those in normal brain tissue, and their expression was negatively regulated by methylation. …”
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Integrative analysis of T cell-mediated tumor killing-related genes reveals KIF11 as a novel therapeutic target in esophageal squamous cell carcinoma by Xinxin Cheng, Huihui Zhao, Zhangwang Li, Liping Yan, Qingjie Min, Qingnan Wu, Qimin Zhan

“…The KIF11 expression was detected by multiplex fluorescent immunohistochemistry on tissue microarray from ESCC patients. Results We constructed the TTKPI based on 8 TTK-related genes. …”
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Notch Signaling Inhibition by LY411575 Attenuates Osteoblast Differentiation and Decreased Ectopic Bone Formation Capacity of Human Skeletal (Mesenchymal) Stem Cells by Nihal AlMuraikhi, Dalia Ali, Radhakrishnan Vishnubalaji, Muthurangan Manikandan, Muhammad Atteya, Abdulaziz Siyal, Musaad Alfayez, Abdullah Aldahmash, Moustapha Kassem, Nehad M. Alajez

“…Global gene expression profiling was conducted using the Agilent microarray platform, and data normalization and bioinformatics were performed using GeneSpring software. …”
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Bioinformatic analysis, clinical implications and experimental validation of ferroptosis-related feature gene in IgA nephropathy: focus on DUSP1 by Tingting Liu, Tingting Pan, Mingxin Chang, Shaojie Fu, Hongzhao Xu, Hao Wu, Zhonggao Xu, Yanli Cheng

“…The aim of this study was to identify ferroptosis-related feature gene (FFG) for the potential diagnosis of IgAN and to investigate its relationship with renal immune cell infiltration.MethodsRenal tissue microarray datasets (GSE93798, GSE104948, GSE99339) from IgAN patients and normal controls were retrieved from GEO database. …”
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Cystatin B Promotes the Proliferation, Migration, and Invasion of Intrahepatic Cholangiocarcinoma by Dai Zhang, Bao-Ye Sun, Jing-Fang Wu, Zhu-Tao Wang, Su-Su Zheng, Guo-Qiang Sun, Xu-Kang Gao, Jian Zhou, Jia Fan, Bo Hu, Shuang-Jian Qiu, Bo-Heng Zhang

“…The clinical significance of CSTB was analyzed through immunohistochemical staining of a tissue microarray. Subsequently, the biological effects of CSTB overexpression or knockdown on iCCA cells were evaluated in vitro and in vivo. …”
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Long non-coding RNA OSTM1-AS1 promotes renal cell carcinoma progression by sponging miR-491-5p and upregulating MMP-9 by Jun-Feng Chen, Sha-Zhou Ye, Ke-Jie Wang, Xiang-yu Meng, Bin-bin Yang, Ke Rong Wu, Qi Ma

“…Hundreds of lncRNAs were known to be abnormally expressed in renal cell carcinoma (RCC) through a lncRNA expression microarray, among which lncRNA OSTM1 antisense RNA 1(OSTM1-AS1) was revealed as one of the most abundant lncRNAs. …”
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Acetylation suppresses breast cancer progression by sustaining CLYBL stability by Xinyue Deng, Chenglong Ma, Xingyu Chen, Ming Yi, Qianhua Cao, Ruocen Liao, Xingyu Lei, Longchang Bai, Bin Zhao, Yingnan Wang, Zhuoyang Shen, Liujing Wu, Chenfang Dong, Zhijun Dai

“…Methods CLYBL expression patterns in breast cancer were assessed using a breast cancer tissue microarray, immunohistochemistry, and publicly available datasets. …”
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A regulatory mutant on TRIM26 conferring the risk of nasopharyngeal carcinoma by inducing low immune response by Xiao‐Ming Lyu, Xiao‐Wei Zhu, Manli Zhao, Xian‐Bo Zuo, Zhong‐Xi Huang, Xiao Liu, Tao Jiang, Xue‐Xi Yang, Xin Li, Xiao‐Bing Long, Jian‐Guo Wang, Jin‐Bang Li, Ming‐Yu Han, Shuang Wang, Teng‐Fei Liu, Bo Zhang, Tao Sun, Zhi Cheng, Mo‐Chang Qiu, Lei Dong, Lu Zheng, Long‐Cheng Zhang, Jia‐Hong Wang, Gan‐Guan Wei, Kaitai Yao, Qian Wang, Hou‐Feng Zheng, Xin Li

“…Significance analysis of microarray suggested that TRIM26 downregulation was related to low immune response in NPC. …”
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FGFR3-TACC3 fusion gene promotes glioblastoma malignant progression through the activation of STAT3 signaling pathway by Yiming Li, Yiming Li, Jianshen Liang, Jianshen Liang, Jianshen Liang, Xiude Ren, Xiude Ren, Jiahe Guo, Jiahe Guo, Jiahe Guo, Xisen Wang, Xisen Wang, Xisen Wang, Xuya Wang, Xuya Wang, Xuya Wang, Shengping Yu, Shengping Yu, Tao Li, Tao Li, Xuejun Yang, Xuejun Yang, Xuejun Yang

“…The role of the STAT3 pathway in gliomas was also reinforced through bioinformatic analysis and immunohistochemistry (IHC) on tissue microarrays (TMA). Further in vivo experiments corroborated the role of F3-T3 in enhancing glioma growth and progression.ConclusionF3-T3 facilitates the proliferation, invasion, migration and EMT of glioma cells, thereby promoting their malignant progression through STAT3 signaling activation. …”
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CD9 regulates proliferation, invasion, migration and radioresistance of esophageal squamous cell carcinoma by activating AKT/GSK3β signaling pathway by Liubing Hou, Liubing Hou, Zengyao Hao, Ge Zhang, Jiayuan Li, Yu Wang, Xiaoying Xue, Xiaoying Xue, Huandi Zhou, Huandi Zhou, Huandi Zhou

“…Retrospectively collected radical radiotherapy specimens (n=14) from our institutional biobank underwent immunohistochemical quantification of CD9 expression correlated with survival outcomes.ResultsTCGA data analysis and 32 paired ESCC and adjacent non-tumorous tissues microarray revealed that CD9 expression was higher in ESCC tissues than in normal tissues, and was associated with tumor stage or lymph node metastasis. …”
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Prognostic significance of cell cycle-associated proteins p16, pRB, cyclin D1 and p53 in resected oropharyngeal carcinoma by Michaela Plath, Martina A. Broglie, Diana Förbs, Sandro J. Stoeckli, Wolfram Jochum

“…The objective of this study was to assess cell cycle proteins as potential surrogate markers for HR-HPV DNA testing to identify OPSCC with favorable prognosis after resection. Methods Tissue microarray cores of 313 surgically treated OPSCC were stained for p16INK4a, pRB, cyclin D1 and p53 using immunohistochemistry. …”
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Uridine-cytidine kinase 2 is correlated with immune, DNA damage repair and promotion of cancer stemness in pan-cancer by Jinlong Tian, Yanlei Li, Yu Tong, Yuan Zhang, Tingxiao Zhao, Yao Kang, Qing Bi

“…GEO is a famous public genomics database supporting freely disseminates microarray data. Finally, we analyzed the correlation between UCK2 and drug sensitivity.ResultsUCK2 expression was observed to be high in most cancers and was remarkably related to the prognosis of pan-cancers. …”
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FVTF inhibits hepatocellular carcinoma stem properties via targeting DNMT1/miR-34a-5p/FoxM1 axis by Xiao-Cheng Cao, Jinwu Peng, Ye-Bei Qiu, Wei Zhu, Jian-Guo Cao, Hui Zou, Zheng-Zheng Yu, Di Wu, Shan-Shan Lu, Wei Huang, Hong Yi, Zhi-Qiang Xiao

“…Additionally, immunohistochemistry of an HCC tissue microarray was carried out to assess the expression levels of DNMT1, FoxM1, and miR-34a-5p. …”
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Polymorphisms of <i>TXK</i> and <i>PLCE1</i> Genes and Their Correlation Analysis with Growth Traits in Ashidan Yaks by Juanxiang Zhang, Xita Zha, Guowu Yang, Xiaoming Ma, Yongfu La, Xiaoyun Wu, Xian Guo, Min Chu, Pengjia Bao, Ping Yan, Chunnian Liang

“…Phospholipase C epsilon 1 (<i>PLCE1</i>), a membrane-associated enzyme, is of paramount importance for the differentiation of myoblasts and the normal functioning of muscle tissue. In recent years, both of these genes have been reported to be associated with the economic traits of animals. …”
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