Development of dynamical network biomarkers for regulation in Epstein-Barr virus positive peripheral T cell lymphoma unspecified type

作者全名："Shen, Dan; Hong, Yin; Feng, Zhengyang; Chen, Xiangying; Cai, Yuxing; Peng, Qiliang; Tu, Jian"

作者地址："[Shen, Dan] Chongqing Med Univ, Dept Oncol, Affiliated Hosp 3, Chongqing, Peoples R China; [Hong, Yin] Suzhou BenQ Hosp, Dept Cardiothorac Surg, Suzhou, Peoples R China; [Feng, Zhengyang] Soochow Univ, Dept Oncol, Affiliated Hosp 2, Suzhou, Peoples R China; [Chen, Xiangying; Cai, Yuxing; Peng, Qiliang] Soochow Univ, Dept Radiotherapy & Oncol, Affiliated Hosp 2, Suzhou, Peoples R China; [Tu, Jian] Soochow Univ, Dept Pathol, Affiliated Hosp 2, Suzhou, Peoples R China"

通信作者："Peng, QL (通讯作者)，Soochow Univ, Dept Radiotherapy & Oncol, Affiliated Hosp 2, Suzhou, Peoples R China.; Tu, J (通讯作者)，Soochow Univ, Dept Pathol, Affiliated Hosp 2, Suzhou, Peoples R China."

来源：FRONTIERS IN GENETICS

ESI学科分类：MOLECULAR BIOLOGY & GENETICS

WOS号：WOS:000900144300001

JCR分区：Q2

影响因子：3.7

年份：2022

卷号：13

期号：　

开始页：　

结束页：　

文献类型：Article

关键词：peripheral T cell lymphoma unspecified type (PTCL-U); Epstein-Barr virus (EBV); gene regulatory network; bioinformatics analysis; network biomarkers

摘要："Background: This study was performed to identify key regulatory network biomarkers including transcription factors (TFs), miRNAs and lncRNAs that may affect the oncogenesis of EBV positive PTCL-U.Methods: GSE34143 dataset was downloaded and analyzed to identify differentially expressed genes (DEGs) between EBV positive PTCL-U and normal samples. Gene ontology and pathway enrichment analyses were performed to illustrate the potential function of the DEGs. Then, key regulators including TFs, miRNAs and lncRNAs involved in EBV positive PTCL-U were identified by constructing TF-mRNA, lncRNA-miRNA-mRNA, and EBV encoded miRNA-mRNA regulatory networks.Results: A total of 96 DEGs were identified between EBV positive PTCL-U and normal tissues, which were related to immune responses, B cell receptor signaling pathway, chemokine activity. Pathway analysis indicated that the DEGs were mainly enriched in cytokine-cytokine receptor interaction and chemokine signaling pathway. Based on the TF network, hub TFs were identified regulate the target DEGs. Afterwards, a ceRNA network was constructed, in which miR-181(a/b/c/d) and lncRNA LINC01744 were found. According to the EBV-related miRNA regulatory network, CXCL10 and CXCL11 were found to be regulated by EBV-miR-BART1-3p and EBV-miR-BHRF1-3, respectively. By integrating the three networks, some key regulators were found and may serve as potential network biomarkers in the regulation of EBV positive PTCL-U.Conclusion: The network-based approach of the present study identified potential biomarkers including transcription factors, miRNAs, lncRNAs and EBV-related miRNAs involved in EBV positive PTCL-U, assisting us in understanding the molecular mechanisms that underlie the carcinogenesis and progression of EBV positive PTCL-U."

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