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

“…Clinically, tissue microarray analyses reveal that USP7 and MGMT co-overexpression in GBM correlates with poor patient survival. …”
Get full text

NF1 expression profiling in IDH-wildtype glioblastoma: genomic associations and survival outcomes by Michael Chang, Mohamed Sherief, Maria Ioannou, Viveka Chinnasamy, Lucy Chen, Michael Frost, Michelle Mattson-Hoss, Herb Sarnoff, David O. Kamson, Matthias Holdhoff, Debraj Mukherjee, Chetan Bettegowda, Jordina Rincon-Torroella, Victoria Croog, Peng Huang, Fausto J. Rodriguez, Calixto-Hope G. Lucas, Karisa C. Schreck

“…We selected 69 GBMs from which to build a tissue microarray (TMA) of 44 NF1-wildtype and 25 NF1-mutant cases. …”
Get full text

The microRNA expression signature of CD4+ T cells in the transition of brucellosis into chronicity. by Ferah Budak, Salih Haldun Bal, Gulcin Tezcan, Emin Halis Akalın, Abdullah Yılmaz, Pınar Hız, Haluk Barbaros Oral

“…CD4+ T cells sorted from peripheral blood samples of patients with acute or chronic brucellosis and healthy controls using flow cytometry as well as more than 2000 miRNAs were screened using the GeneSpring GX (Agilent) 13.0 miRNA microarray software and were validated using reverse transcription polymerase chain reaction (RT-qPCR). …”
Get full text

Variations in salivary microbiome and metabolites are associated with immunotherapy efficacy in patients with advanced NSCLC by DanHui Huang, YueHua Chen, Cui Li, Shuang Yang, LiShan Lin, XiaoNan Zhang, XiaoFang Su, LaiYu Liu, Haijin Zhao, Tingyue Luo, Shaoxi Cai, QianNan Ren, Hangming Dong

“…Besides, in vitro experiments and tumor tissue microarray, including 70 NSCLC patients, were utilized to further explore the potential mechanism linking the oral microbiome and immunotherapy efficacy. …”
Get full text

Distinct mRNA expression profiles and miRNA regulators of the PI3K/AKT/mTOR pathway in breast cancer: insights into tumor progression and therapeutic targets by Tomasz Sirek, Tomasz Sirek, Katarzyna Król-Jatręga, Katarzyna Król-Jatręga, Przemysław Borawski, Nikola Zmarzły, Dariusz Boroń, Dariusz Boroń, Dariusz Boroń, Dariusz Boroń, Piotr Ossowski, Olga Nowotny-Czupryna, Kacper Boroń, Dominika Janiszewska-Bil, Elżbieta Mitka-Krysiak, Beniamin Oskar Grabarek, Beniamin Oskar Grabarek

“…This study aimed to investigate the differential expression of genes and miRNAs involved in the PI3K/AKT/mTOR signaling pathway, a critical regulator of cancer progression.MethodsWe analyzed tumor tissues from five breast cancer subtypes—luminal A, luminal B HER2-negative, luminal B HER2-positive, HER2-positive, and triple-negative breast cancer (TNBC)—and compared them with non-cancerous tissues. Microarray and qRT-PCR techniques were employed to profile mRNAs and miRNAs, while bioinformatic tools predicted miRNA-mRNA interactions. …”
Get full text

Machine learning reveals CAT gene as a novel potential diagnostic and prognostic biomarker in non-small cell lung cancer by Yi Tian, Wen-ya Zhao, Yi-ru Liu, Wen-wen Song, Qiao-xin Lin, Yan-na Gong, Yi-ting Deng, Dian-na Gu, Ling Tian

“…Furthermore, immunohistochemical staining was performed in an independent cohort from a tissue microarray. Additionally, cell culture and RT-qPCR were employed for external validation. …”
Get full text

MET overexpression contributes to STAT4-PD-L1 signaling activation associated with tumor-associated, macrophages-mediated immunosuppression in primary glioblastomas by Ying Zhang, Zheng Wang, Zheng Zhao, Tao Jiang, Shou-Wei Li, Yong-Jian Zhu, Qiang-Wei Wang, Li-Hua Sun, Zhi-Liang Wang, Kuan-Yu Wang, Guan-Zhang Li, Jian-Bao Xu, Chang-Yuan Ren, Wen-Ping Ma, Hong-Jun Wang, Zhao-Shi Bao

“…Western blot analysis revealed that in GBM cell lines (N33 and LN229), PD-L1 and phosphorylated STAT4 were upregulated by MET activation treatment with hepatocyte growth factor and were downregulated on MET suppression by PLB-1001. Tumor tissue microarray analysis indicated a positive correlation between MET and PD-L1 and macrophage-associated markers. …”
Get full text

Differential expression pattern of CC chemokine receptor 7 guides precision treatment of hepatocellular carcinoma by Jie Qin, Qianyi Gong, Cheng Zhou, Jietian Xu, Yifei Cheng, Weiyue Xu, Di Zhu, Yiming Liu, Yuye Zhang, Yanru Wang, Lingling Gao, Lanfang Li, Wulei Hou, Qian Li, Binbin Liu, Yazhen Zhu, Zuoyun Wang, Jieyi Shi, Shuangjian Qiu, Chunmin Liang

“…In this study, the complex tumor microenvironment was identified by using tissue microarray (TMA), spatial transcriptomes and single-cell sequencing. …”
Get full text

NAP1L5 in acute myeloid leukemia: a prognostic biomarker and potential therapeutic target by Meng Wang, Meng Wang, Zhibin Xie, Yuanyuan Tan, Yan Zhou, Tingting Zhang, Yuqing Du, Huan Wu, Lili Zhou, Jian Ge

“…However, its specific role and molecular mechanisms in acute myeloid leukemia (AML) remain largely unexplored.MethodsTo identify key genes associated with AML, we analyzed gene expression profiles from AML patients and healthy controls using microarray datasets obtained from the GEO database. …”
Get full text

Oncolytic adenovirus decreases the proportion of TIM-3+ subset of tumor-infiltrating CD8+ T cells with correlation to improved survival in patients with cancer by Matti Kankainen, Timo Joensuu, Akseli Hemminki, Juuso Juhila, Siri Tähtinen, Otto Hemminki, Anna Kanerva, Kristian Taipale, Ilkka Liikanen, Minna Oksanen, Dafne C A Quixabeira, Saru Basnet

“…Following patient stratification with regard to TIM-3 (increase vs decrease in tumors), overall survival and imaging/marker responses were evaluated by log-rank and Fisher’s test, while coinhibitory receptors/ligands, transcriptomic changes and tumor-reactive and tumor-infltrating immune cells in biopsies and blood samples were studied by microarray rank-based statistics and immunoassays.Results Preclinically, TIM-3+ tumor-infiltrating lymphocytes (TILs) in B16 melanoma showed an exhausted phenotype, whereas oncolytic adenovirus treatment significantly reduced the proportion of TIM-3+ TIL subset through recruitment of less-exhausted CD8+ TIL. …”
Get full text

Machine learning-based integration identifies plasma cells-related gene signature ST6GAL1 in idiopathic pulmonary fibrosis by Fanjie Lin, Ken Lin, Donglei Li, Weiguo Kong, Jiayu Zhuang, Wei He, Xinguang Wei, Tianchi Xiao, Hao Zu, Zili Zhang, Wenju Lu

“…Moreover, the differentially expressed genes (DEGs) were obtained based on the bulk RNA-seq and microarray data. In addition, a machine learning-based integrative procedure for constructing a concordance plasma cells-related gene signature (PCRGS) was developed. …”
Get full text

CD226+ B cells in primary Sjögren’s syndrome: a key player in clinical manifestations and disease pathogenesis by Ping Zhao, Ping Zhao, Saizhe Song, Song Zhang, Cheng Peng, Wei Cheng, Xin Chang, Xin Chang, Changhao Xie, Zhongli Hu, Cuiping Liu

“…Multicolor immunofluorescence staining was applied to detect the co-expression of B cells and CD226 in the salivary gland of pSS patients.Microarray analysis was conducted to analyze the transcriptomic profiles of sorted CD226+ CD19+ B cells and CD226- CD19+ B cells.ResultsCD226 expression in the peripheral blood of pSS patients was significantly increased on T cells, CD19+ B cells and CD14+ monocytes, but significantly decreased on CD56+ NK cells.We identified a distinct CD226+CD19+ B cell subset that exhibited pathogenic features in pSS. …”
Get full text

LAPTM4B enhances the stemness of CD133+ liver cancer stem-like cells via WNT/β-catenin signaling by Jiahong Wang, Jianping Liao, Ye Cheng, Meirong Chen, Aimin Huang

“…Clinical relevance was evaluated in an in-house cohort of 105 specimens from patients with HCC through immunohistochemical and microarray analysis, enabling investigation of correlations with clinical outcomes. …”
Get full text

Berberine Improves Inflammatory Responses of Diabetes Mellitus in Zucker Diabetic Fatty Rats and Insulin-Resistant HepG2 Cells through the PPM1B Pathway by Yang Sheng Wu, Zhe Ming Li, Yi Tao Chen, Shi Jie Dai, Xiao Jie Zhou, Yuan Xiao Yang, Jian Shu Lou, Li Ting Ji, Yu Ting Bao, Ling Xuan, Lu Ning Lin, Chang Yu Li

“…Biochemical measurements and liver histopathology were detected using the biochemical analyzer and HE staining in ZDF rats, respectively. Microarray analysis of liver tissues was performed, and differentially expressed gene (DEG) levels were examined by quantitative real-time PCR (qPCR) and Western blot. …”
Get full text

Spatially resolved analysis of the T cell immune contexture in lung cancer-associated brain metastases by Richa Gupta, Sarah B Goldberg, Kurt A Schalper, Harriet M Kluger, Lucia B Jilaveanu, Adebowale J Adeniran, Benjamin Y Lu, Adam Aguirre-Ducler, Nicole Gianino, Hailey Wyatt, Matthew Ribeiro, Veronica L Chiang, Joseph N Contessa

“…Clinicopathologically annotated samples from 95 patients with lung cancer between 2002 and 2015 were represented in a tissue microarray format. Spatially resolved and multiplexed QIF was used to evaluate PD-L1 protein, phenotype markers for major T cell subsets (CD3, CD4, CD8, and FOXP3), cell-localized activation and proliferation markers (granzyme B and Ki67), and coinhibitory receptors (PD-1, LAG-3, and TIM-3). …”
Get full text

The independent prognostic impact of the GATA2 pioneering factor is restricted to ERG-negative prostate cancer by Franziska Büscheck, Maciej Zub, Asmus Heumann, Claudia Hube-Magg, Ronald Simon, Dagmar S Lang, Doris Höflmayer, Emily Neubauer, Frank Jacobsen, Andrea Hinsch, Andreas M Luebke, Maria Christina Tsourlakis, Guido Sauter, Hartwig Huland, Markus Graefen, Alexander Haese, Hans Heinzer, Torsten Schlomm, Till S Clauditz, Eike Burandt, Waldemar Wilczak, Stefan Steurer, Sarah Minner

“…To understand the prognostic potential of GATA2 assessment in prostate cancer, we analyzed nuclear GATA2 expression on an annotated tissue microarray with 12,427 prostate cancer samples. Normal prostate glands were negative to weakly positive. …”
Get full text

Disruption of bioenergetics enhances the radio-sensitivity of patient-derived glioblastoma tumorspheres by Seo Jin Kim, Junseong Park, Jin-kyoung Shim, Ran Joo Choi, Ju Hyung Moon, Eui Hyun Kim, Wan-Yee Teo, Jong Hee Chang, Seok-Gu Kang

“…Methods: Gene expression profiles of GBM patient-derived TSs were obtained through microarray and RNA-seq. In vitro treatment efficacy was assessed using clonogenic assay, 3D invasion assay, neurosphere formation assay, and flow cytometry. …”
Get full text

Autoantibodies Targeting Vinculin Reveal Novel Insight into the Mechanisms of Autoimmune Podocytopathies by Hanyan Meng, Dongjie Wang, Chen Zheng, Chao Zhou, Xinrui Mao, Jinglan Gu, Xiaohui Qiao, Fei Liu, Jingjing Wang, Haidong Fu, Jianhua Mao, Qing Ye

“…Methods: Serum anti-vinculin autoantibody levels detected by protein microarray and clinical data were compared among INS patients (n = 147), healthy individuals (n = 84), and patients with other kidney or immune diseases (n = 100 of each disease). …”
Get full text

Prenatally and postnatally sequential genetic etiology detection in corpus callosum abnormalities by Huili Xue, Aili Yu, Lin Zheng, Xianglan Ye, Lin Zhang, Qun Guo, Lingji Chen, Qingmei Shen, Na lin, Hailong Huang, Liangpu Xu

“…Abstract To evaluate the clinical utility of genetic testing via karyotyping, chromosomal microarray analysis (CMA), and exome sequencing in cases with corpus callosum abnormalities (CCA). …”
Get full text

Augmenting precision medicine via targeted RNA-Seq detection of expressed mutations by Dan Li, Jianying Li, Donald J. Johann, Daniel Butler, Guangchun Chen, Jonathan Foox, Binsheng Gong, Wendell Jones, David P. Kreil, Rebecca Kusko, Paweł P. Łabaj, Anne Bergstrom Lucas, Christopher E. Mason, Christopher Mozsary, Natalia Novoradovskaya, Carlos Pabón-Peña, Bohu Pan, Todd A. Richmond, Roberta Maestro, Sayed Mohammad Ebrahim Sahraeian, Andreas Scherer, Hagen U. Tilgner, James C. Willey, Pierre R. Bushel, Joshua Xu

Get full text