EBV-HSA-RegDB: A database of regulatory interactions between Epstein–Barr virus and human miRNAs

IF 2.5 4区医学 Q3 VIROLOGY

Archives of Virology Pub Date : 2026-10-07 DOI:10.1007/s00705-026-06753-8

Helber Gonzales Almeida Palheta, Amanda Ferreira Mercês, Greice de Lemos Cardoso Costa, Gilderlanio Santana de Araújo

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引用次数: 0

Abstract

Epstein-Barr virus (EBV) is a ubiquitous human herpesvirus associated with various malignancies and autoimmune diseases. MiRNAs play crucial roles in viral-host interactions by regulating gene expression post-transcriptionally. Understanding the regulatory networks between EBV-encoded miRNAs and human miRNAs is essential for elucidating viral pathogenesis and identifying therapeutic targets. We reported the EBV-HSA miRNA Regulatory Database (EBV-HSA-RegDB, https://lbcd.ufpa.br/ebvhsa or https://lbcd.ia.br/ebvhsa), an integrated bioinformatics resource that combines comparative sequence analysis, regulatory network reconstruction, experimental data integration, and functional gene enrichment analysis. The database incorporates miRNA sequences from miRBase, experimentally validated miRNA-target interactions from miRTarBase, transcriptomic data from cell line models, and miRNA data from ENCORI/StarBase. We implemented multiple sequence-comparison methods, including Hamming, Levenshtein similarity, and the Needleman-Wunsch alignment algorithm, to investigate miRNA seed and global alignments. The tool reconstructs and enables exploration of a comprehensive regulatory network linking experimental data on EBV-encoded miRNAs, human miRNAs, and their target genes. Gene Ontology and pathway analyses using the KEGG and Reactome databases are also available. Network analysis identified key regulatory hubs and revealed convergent targeting patterns in which EBV and human miRNAs regulate the same target genes (IPO7, DICER, TP53, E2F3, SMAD4, SPRY2) and several pairs of EBV-encoded miRNAs and their human counterparts, with high similarity in their target sequences. Functional enrichment analysis uncovered significant associations with biological processes, molecular functions, cellular components, and pathways relevant to viral infection, immune response, and cellular transformation. The EBV-HSA-RegDB provides a user-friendly, interactive platform for exploring virus-host miRNA regulatory networks. This resource facilitates hypothesis generation regarding EBV pathogenesis mechanisms and may aid in elucidating novel gene targets for EBV-associated diseases.

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EBV-HSA-RegDB: Epstein-Barr病毒与人类mirna调控相互作用的数据库

eb病毒（EBV）是一种普遍存在的人类疱疹病毒，与多种恶性肿瘤和自身免疫性疾病有关。mirna通过转录后调控基因表达，在病毒与宿主相互作用中发挥关键作用。了解ebv编码的mirna和人类mirna之间的调控网络对于阐明病毒发病机制和确定治疗靶点至关重要。我们报道了EBV-HSA miRNA调控数据库（EBV-HSA- regdb, https://lbcd.ufpa.br/ebvhsa或https://lbcd.ia.br/ebvhsa），这是一个集成的生物信息学资源，结合了比较序列分析、调控网络重建、实验数据整合和功能基因富集分析。该数据库整合了来自miRBase的miRNA序列、来自miRTarBase的实验验证的miRNA-靶标相互作用、来自细胞系模型的转录组学数据以及来自ENCORI/StarBase的miRNA数据。我们实施了多种序列比较方法，包括Hamming， Levenshtein相似性和Needleman-Wunsch比对算法，以研究miRNA种子和全局比对。该工具重建并探索了连接ebv编码mirna、人类mirna及其靶基因实验数据的综合调控网络。使用KEGG和Reactome数据库的基因本体和途径分析也可用。网络分析确定了关键的调控枢纽，揭示了EBV和人类mirna调控相同靶基因（ip7、DICER、TP53、E2F3、SMAD4、SPRY2）的趋同靶向模式，以及几种EBV编码的mirna和它们的人类对应物在靶序列上具有高度相似性。功能富集分析揭示了与病毒感染、免疫反应和细胞转化相关的生物过程、分子功能、细胞成分和途径的显著关联。EBV-HSA-RegDB为探索病毒宿主miRNA调控网络提供了一个用户友好的交互式平台。这一资源有助于产生关于EBV发病机制的假设，并可能有助于阐明EBV相关疾病的新基因靶点。

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来源期刊

Archives of Virology 医学-病毒学

CiteScore

5.10

自引率

7.40%

发文量

324

审稿时长

4.5 months

期刊介绍： Archives of Virology publishes original contributions from all branches of research on viruses, virus-like agents, and virus infections of humans, animals, plants, insects, and bacteria. Coverage spans a broad spectrum of topics, from descriptions of newly discovered viruses, to studies of virus structure, composition, and genetics, to studies of virus interactions with host cells, organisms and populations. Studies employ molecular biologic, molecular genetics, and current immunologic and epidemiologic approaches. Contents include studies on the molecular pathogenesis, pathophysiology, and genetics of virus infections in individual hosts, and studies on the molecular epidemiology of virus infections in populations. Also included are studies involving applied research such as diagnostic technology development, monoclonal antibody panel development, vaccine development, and antiviral drug development.Archives of Virology wishes to publish obituaries of recently deceased well-known virologists and leading figures in virology.