DIANA-Lab, Department of Computer Science and Biomedical Informatics, Univ. of Thessaly, Lamia 35131, Greece.
Hellenic Pasteur Institute, Athens 11521, Greece.
Nucleic Acids Res. 2023 Jul 5;51(W1):W154-W159. doi: 10.1093/nar/gkad431.
DIANA-miRPath is an online miRNA analysis platform harnessing predicted or experimentally supported miRNA interactions towards the exploration of combined miRNA effects. In its latest version (v4.0, http://www.microrna.gr/miRPathv4), DIANA-miRPath breaks new ground by introducing the capacity to tailor its target-based miRNA functional analysis engine to specific biological and/or experimental contexts. Via a redesigned modular interface with rich interaction, annotation and parameterization options, users can now perform enrichment analysis on Gene Ontology (GO) terms, KEGG and REACTOME pathways, sets from Molecular Signatures Database (MSigDB) and PFAM. Included miRNA interaction sets are derived from state-of-the-art resources of experimentally supported (DIANA-TarBase v8.0, miRTarBase and microCLIP cell-type-specific interactions) or from in silico miRNA-target interactions (updated DIANA-microT-CDS and TargetScan predictions). Bulk and single-cell expression datasets from The Cancer Genome Atlas (TCGA), the Genotype-Tissue Expression project (GTEx) and adult/fetal single-cell atlases are integrated and can be used to assess the expression of enriched term components across a wide range of states. A discrete module enabling enrichment analyses using CRISPR knock-out screen datasets enables the detection of selected miRNAs with potentially crucial roles within conditions under study. Notably, the option to upload custom interaction, term, expression and screen sets further expands the versatility of miRPath webserver.
DIANA-miRPath 是一个在线 miRNA 分析平台,利用预测或实验支持的 miRNA 相互作用来探索组合 miRNA 效应。在其最新版本(v4.0,http://www.microrna.gr/miRPathv4)中,DIANA-miRPath 通过引入根据特定生物和/或实验背景定制基于靶标的 miRNA 功能分析引擎的能力,开辟了新的领域。通过重新设计的模块化界面,具有丰富的交互、注释和参数化选项,用户现在可以对基因本体论 (GO) 术语、KEGG 和 REACTOME 途径、分子特征数据库 (MSigDB) 和 PFAM 中的集进行富集分析。包含的 miRNA 相互作用集来自实验支持的最先进资源(DIANA-TarBase v8.0、miRTarBase 和 microCLIP 细胞类型特异性相互作用)或来自计算 miRNA-靶标相互作用(更新的 DIANA-microT-CDS 和 TargetScan 预测)。来自癌症基因组图谱 (TCGA)、基因型-组织表达项目 (GTEx) 和成人/胎儿单细胞图谱的批量和单细胞表达数据集被集成,可以用于评估在广泛状态下富集术语成分的表达。一个启用使用 CRISPR 敲除筛选数据集进行富集分析的离散模块,可以检测到在研究条件下具有潜在关键作用的选定 miRNA。值得注意的是,上传自定义相互作用、术语、表达和筛选集的选项进一步扩展了 miRPath 网络服务器的多功能性。
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