Overexpression of Mena is associated with tumor progression and poor prognosis in oral squamous cell carcinoma via EMT by Sijia Na, Sijia Na, Hao Cui, Hao Cui, Zhichen Guo, Zhichen Guo, Xiang Liang, Xiang Liang, Karim Ahmed Sakran, Karim Ahmed Sakran, Xiaomei Guo, Xiaomei Guo, Xingqiang Li, Xingqiang Li, Linyang Xie, Linyang Xie, Yifei Zhu, Yifei Zhu, Hong Qi, Hong Qi, Junbo Tu, Junbo Tu

“…Further, the expression level of Mena and tumor-related markers in 151 OSCC specimens was examined by IHC staining based on tissue microarray. Kaplan-Meier analysis was used to assess the prognostic performance of Mena in OSCC.ResultMena was generally upregulation in various malignancies, especially OSCC. …”
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A reliable transcriptomic risk-score applicable to formalin-fixed paraffin-embedded biopsies improves outcome prediction in localized prostate cancer by Michael Rade, Markus Kreuz, Angelika Borkowetz, Ulrich Sommer, Conny Blumert, Susanne Füssel, Catharina Bertram, Dennis Löffler, Dominik J. Otto, Livia A. Wöller, Carolin Schimmelpfennig, Ulrike Köhl, Ann-Cathrin Gottschling, Pia Hönscheid, Gustavo B. Baretton, Manfred Wirth, Christian Thomas, Friedemann Horn, Kristin Reiche

“…We previously developed the prognostic ProstaTrend RNA signature based on transcriptome‐wide microarray and RNA-sequencing (RNA-Seq) analyses, primarily of prostatectomy specimens. …”
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Integrated clinical analysis and data mining assessed the impact of NOX4 on the immune microenvironment and prognosis of pancreatic cancer by Xin Zhao, Xin Zhao, Yichen He, Yichen He, Yi Pan, Yi Pan, Luyi Ye, Luyi Ye, Longcai Liu, Longcai Liu, Xiaozhou Mou, Luoqin Fu

“…NOX4 plays an important role in tumor microenvironment and has a significant relationship with the occurrence, development and drug resistance of tumor.MethodsFirstly, NOX4 expression in pancreatic cancer tissues under different pathological conditions was detected by applying immunohistochemical staining of tissue microarray (TMA). Transcriptome RNA sequencing data and clinical data of 182 pancreatic cancer samples were downloaded and collated from the UCSC xena database. 986 NOX4-related lncRNAs were filtered by Spearman correlation analysis. prognosis-related NOX4-related lncRNAs and NRlncSig Score were finally obtained by univariate and multivariate Cox regression with Least Absolute Shrinkage and Selection Operator (Lasso) analysis in pancreatic cancer patients. we plotted Kaplan -Meier and time-dependent ROC curves (ROC) to assess the validity in predicting the prognosis of pancreatic cancer. …”
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Decreased expression of mitochondrial aminoacyl-tRNA synthetases causes downregulation of OXPHOS subunits in type 2 diabetic muscle by Iliana López-Soldado, Adrian Gabriel Torres, Raúl Ventura, Inma Martínez-Ruiz, Angels Díaz-Ramos, Evarist Planet, Diane Cooper, Agnieszka Pazderska, Krzysztof Wanic, Declan O'Hanlon, Donal J. O'Gorman, Teresa Carbonell, Lluís Ribas de Pouplana, John J. Nolan, Antonio Zorzano, María Isabel Hernández-Alvarez

“…GSEA analysis from microarray studies revealed the repression of mitochondrial mt-aaRSs independently of age, which was validated by real-time PCR assays. …”
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IMiD/CELMoD-induced growth suppression of adult T-cell leukemia/lymphoma cells via cereblon through downregulation of target proteins and their downstream effectors by Yu Wang, Shunsuke Shimosaki, Emi Ikebe, Emi Ikebe, Hidekatsu Iha, Hidekatsu Iha, Hidekatsu Iha, Jun-ichi Yamamoto, Nichole Fife, Tomonaga Ichikawa, Mitsuo Hori, Masao Ogata, Masao Ogata, Yoshiyuki Tsukamoto, Naoki Hijiya, Masatsugu Moriyama, Shotaro Hagiwara, Shuichi Kusano, Masumichi Saito, Kamruddin Ahmed, Akira Nishizono, Akira Nishizono, Hiroshi Handa, Kazuhiro Morishita

“…CRBN knockdown (KD) led to a loss of LEN efficacy and IKZF2-KD-induced LEN efficacy in resistant cells. DNA microarray analysis demonstrated distinct transcriptional alteration after LEN treatment between LEN-sensitive and LEN-resistant ATL cell lines. …”
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Fibulin7 Mediated Pathological Cardiac Remodeling through EGFR Binding and EGFR‐Dependent FAK/AKT Signaling Activation by Xuehui Zheng, Lingxin Liu, Jing Liu, Chen Zhang, Jie Zhang, Yan Qi, Lin Xie, Chunmei Zhang, Guoqing Yao, Peili Bu

“…They observe significantly upregulated serum FBLN7 levels in MI patients with left ventricular remodeling compared to those without MI. Microarray dataset analysis reveal FBLN7 is upregulated in human heart samples from patients with dilated and hypertrophic cardiomyopathy compared with non‐failing hearts. …”
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Endometrial stromal cell miR-19b-3p release is reduced during decidualization implying a role in decidual-trophoblast cross-talk by Ellen Menkhorst, Ellen Menkhorst, Teresa So, Teresa So, Kate Rainczuk, Siena Barton, Siena Barton, Wei Zhou, Wei Zhou, Tracey Edgell, Evdokia Dimitriadis, Evdokia Dimitriadis, Evdokia Dimitriadis

“…We aimed to determine how decidualization affects hESF miR release and investigated the function of one decidualization regulated miR, miR-19b-3p, previously shown to be associated with recurrent pregnancy loss.MethodmiR release by hESF was determined by miR microarray on culture media from hESF decidualized in vitro for 3 and 14 days by treatment with oestradiol and medroxyprogesterone acetate. …”
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Heterogeneity of PD-L1 expression and CD8 lymphocyte infiltration in metastatic colorectal cancer and their prognostic significance by Haisong Xin, Chaoxi Zhou, Guanglin Wang, Yan Liu, Juan Zhang, Youqiang Liu, Baokun Li, Jianfeng Zhang, Mingming Su, Zhihan Li, Guiying Wang

“…PD-L1, CD4, and CD8 expression were detected by immunohistochemistry in a tissue microarray. PD-L1 expression was assessed using the combined positivity score (CPS), and a score ≥1 was judged as positive. …”
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MRI-derived radiomics assessing tumor-infiltrating macrophages enable prediction of immune-phenotype, immunotherapy response and survival in glioma by Di Chen, Rui Zhang, Xiaoming Huang, Chunxia Ji, Wei Xia, Ying Qi, Xinyu Yang, Lishuang Lin, Jing Wang, Haixia Cheng, Weijun Tang, Jinhua Yu, Dave S. B. Hoon, Jun Zhang, Xin Gao, Yu Yao

“…Among them, 145 patients from the TCGA microarray cohort were randomly allocated into a training set (N=101) and an internal validation set (N=44), while the immune-phenotype cohort (N=203) and the immunotherapy-treated cohort (N=31, patients from a prospective clinical trial treated with DC vaccine) recruited from Huashan Hospital were used as two external validation sets. …”
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DPP9 as a Potential Novel Mediator in Gastrointestinal Virus Infection by Ángela del Castillo-Izquierdo, José María Moreno-Navarrete, Jessica Latorre, María Arnoriaga-Rodríguez, Marta Ballanti, Giovanni Monteleone, Omero Alessandro Paoluzi, Geltrude Mingrone, Josep Puig, Rafael Ramos, Josep Garre-Olmo, Mariona Jové, Reinald Pamplona, Manuel Portero-Otín, Joaquim Sol, Philippe Lefebvre, Bart Staels, Massimo Federici, José Manuel Fernández-Real, Jordi Mayneris-Perxachs

“…We performed transcriptomics analyses of colon (microarray, <i>n</i> = 37) and jejunal (RNA sequencing, <i>n</i> = 31) biopsies from two independent cohorts as well as plasma metabolomics analyses in two independent cohorts (<i>n</i> = 37 and <i>n</i> = 795). …”
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Molecular Characterization of Chimeric <i>Staphylococcus aureus</i> Strains from Waterfowl by Stefan Monecke, Sascha D. Braun, Maximillian Collatz, Celia Diezel, Elke Müller, Martin Reinicke, Adriana Cabal Rosel, Andrea T. Feßler, Dennis Hanke, Igor Loncaric, Stefan Schwarz, Sonia Cortez de Jäckel, Werner Ruppitsch, Dolores Gavier-Widén, Helmut Hotzel, Ralf Ehricht

“…When characterizing <i>S. aureus</i> isolates from waterfowl, isolates were identified as atypical CC133 by DNA microarray analysis. They differed from previously sequenced CC133 strains in the presence of the collagen adhesin gene <i>cna</i>; some also showed a different capsule type and a deviant <i>spa</i> type. …”
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Targeting inhibition of prognosis-related lipid metabolism genes including CYP19A1 enhances immunotherapeutic response in colon cancer by Lilong Liu, Min Mo, Xuehan Chen, Dongchen Chao, Yufan Zhang, Xuewei Chen, Yang Wang, Nan Zhang, Nan He, Xi Yuan, Honglei Chen, Jing Yang

“…These results were comfirmed by in vitro coculture of colon cancer cells with peripheral blood mononuclear cells, human colon cancer tissue microarray analysis, multiplex immunofluorescence staining and mouse xenograft models of colon cancer. …”
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Construction of a lncRNA–mRNA Co-Expression Network for Nasopharyngeal Carcinoma by Chunmei Fan, Chunmei Fan, Chunmei Fan, Fang Xiong, Fang Xiong, Fang Xiong, Yanyan Tang, Panchun Li, Kunjie Zhu, Yongzhen Mo, Yumin Wang, Shanshan Zhang, Zhaojiang Gong, Qianjin Liao, Guiyuan Li, Guiyuan Li, Zhaoyang Zeng, Zhaoyang Zeng, Can Guo, Can Guo, Wei Xiong, Wei Xiong, He Huang

“…In order to study and screen novel lncRNAs with important functions in the carcinogenesis of nasopharyngeal carcinoma (NPC), we constructed a lncRNA expression profile of 10 NPC tissues and 6 controls through a gene microarray. We identified 1,276 lncRNAs, of which most are unknown, with different expression levels in the healthy and NPC tissues. …”
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PM2.5 exposure promotes asthma in aged Brown-Norway rats: Implication of multiomics analysis by Lianlian Zhao, Baicun Li, Li Zhou, Chenchen Song, Taisheng Kang, Yanfeng Xu, Yunpeng Liu, Yunlin Han, Wenjie Zhao, Hongliang Jia, Boxiang Zhang, Jianguo Guo

“…The basic process of elderly asthma caused by PM2.5 exposure was investigated by lung function detection, enzyme-linked immunosorbent assay (ELISA), histopathology, cytology, cytokine microarray, untargeted metabolomics, and gut microbiota analysis. …”
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Targeting the Id1-Kif11 Axis in Triple-Negative Breast Cancer Using Combination Therapy by Archana P. Thankamony, Reshma Murali, Nitheesh Karthikeyan, Binitha Anu Varghese, Wee S. Teo, Andrea McFarland, Daniel L. Roden, Holly Holliday, Christina Valbirk Konrad, Aurelie Cazet, Eoin Dodson, Jessica Yang, Laura A. Baker, Jason T. George, Herbert Levine, Mohit Kumar Jolly, Alexander Swarbrick, Radhika Nair

“…We used two different TNBC tumor models marked by either <i>Id</i> depletion or <i>Id1</i> expression in order to identify <i>Id</i> targets using a combinatorial analysis of RNA sequencing and microarray data. Phenotypically, Id protein depletion leads to cell cycle arrest in the G0/G1 phase, which we demonstrate is reversible. …”
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The Prognostic Significance of <i>FKBP1A</i> and Its Related Immune Infiltration in Liver Hepatocellular Carcinoma by Zhongguang Li, Ying Cui, Qinchun Duan, Jianfei Zhang, Danyang Shao, Xixi Cao, Yuru Gao, Shulin Wang, Jiali Li, Odell D. Jones, Xinjuan Lei, Liyang Wang, Xin Zhou, Mengmeng Xu, Jianjie Ma, Yingli Liu, Xuehong Xu

“…Human liver tissue microarray was employed to analyze the characteristics of FKBP1A protein including the expression level and pathological alteration in cellular distribution. …”
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The mRNA and protein levels of the glycolytic enzymes lactate dehydrogenase A (LDHA) and phosphofructokinase platelet (PFKP) are good predictors of survival time, recurrence, and r... by Verónica Bolaños‐Suárez, Ana Alfaro, Ana María Espinosa, Ingrid Medina‐Martínez, Eligia Juárez, Nicolás Villegas‐Sepúlveda, Marco Gudiño‐Zayas, América Gutiérrez‐Castro, Edgar Román‐Bassaure, María Eugenia Salinas‐Nieves, Sergio Bruno‐Muñoz, Carlos Aranda, Oscar Flores‐Herrera, Jaime Berumen

“…Methods The expression of 14 glycolytic genes was analyzed in 97 CC and 29 healthy cervical tissue (HCT) with microarray; only LDHA and PFKP were validated at the mRNA and protein levels in 36 of those CC samples and in 109 new CC samples, and 31 HCT samples by qRT–PCR, Western blotting, or immunohistochemistry. …”
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Granulocyte–colony stimulating factor plus plerixafor in patients with β-thalassemia major results in the effective mobilization of primitive CD34+ cells with specific gene express... by Elena Baiamonte, Rita Barone, Flavia Contino, Rosalia Di Stefano, Anna Marfia, Aldo Filosa, Emanuela D'Angelo, Salvatore Feo, Santina Acuto, Aurelio Maggio

“…The addition of plerixafor unanimously increased the number of circulating CD34+ cells, and the frequency of the most primitive CD34+ subtypes: CD34+/38- and CD34+/133+/38- as well as the in vitro clonogenic potency. Microarray analyses of CD34+ cells purified from the leukapheresis of one patient mobilized twice, with G-CSF and with G-CSF+plerixafor, highlighted in G-CSF+plerixafor-mobilized CD34+ cells, higher levels of expression genes involved in HSPC motility, homing, and cell cycles. …”
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Epigenomic Profiling Advises Therapeutic Potential of Leukotriene Receptor Inhibitors for a Subset of Triple-Negative Breast Tumors by Alexey I. Kalinkin, Vladimir O. Sigin, Ekaterina B. Kuznetsova, Ekaterina O. Ignatova, Ilya I. Vinogradov, Maxim I. Vinogradov, Igor Y. Vinogradov, Dmitry V. Zaletaev, Marina V. Nemtsova, Sergey I. Kutsev, Alexander S. Tanas, Vladimir V. Strelnikov

“…We performed a genome-wide analysis of DNA methylation at CpG islands on a collection of one hundred ten breast carcinoma samples and six normal breast tissue samples using reduced representation bisulfite sequencing with the XmaI restriction enzyme (XmaI-RRBS) and identified a subset of TNBC samples with significant hypomethylation at the <i>LTB4R/LTB4R2</i> genes’ CpG islands, including CpG dinucleotides covered with cg12853742 and cg21886367 HumanMethylation 450K microarray probes. Abnormal DNA hypomethylation of this region in TNBC compared to normal samples was confirmed by bisulfite Sanger sequencing. …”
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circEIF3I facilitates the recruitment of SMAD3 to early endosomes to promote TGF-β signalling pathway-mediated activation of MMPs in pancreatic cancer by Zhongjie Zhao, Wenbo Yang, Rui Kong, Yangyang Zhang, Le Li, Zengfu Song, Hongze Chen, Yan Luo, Tao Zhang, Chundong Cheng, Guanqun Li, Danxi Liu, Xinglong Geng, Hua Chen, Yongwei Wang, Shangha Pan, Jisheng Hu, Bei Sun

“…The effects of circEIF3I on the interactions of SMAD3 with TGFβRI or AP2A1 were measured through co-immunoprecipitation and western blotting. Results A microarray data analysis showed that circEIF3I was highly expressed in PDAC cells and correlated with TNM stage and poor prognosis. …”
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