文献检索文档翻译深度研究
Suppr Zotero 插件Zotero 插件
邀请有礼套餐&价格历史记录

新学期,新优惠

限时优惠:9月1日-9月22日

30天高级会员仅需29元

1天体验卡首发特惠仅需5.99元

了解详情
不再提醒
插件&应用
Suppr Zotero 插件Zotero 插件浏览器插件Mac 客户端Windows 客户端微信小程序
高级版
套餐订阅购买积分包
AI 工具
文献检索文档翻译深度研究
关于我们
关于 Suppr公司介绍联系我们用户协议隐私条款
关注我们

Suppr 超能文献

核心技术专利:CN118964589B侵权必究
粤ICP备2023148730 号-1Suppr @ 2025

DIANA-miRPath v4.0:在细胞类型和组织背景下扩展基于靶标的 miRNA 功能分析。

DIANA-miRPath v4.0: expanding target-based miRNA functional analysis in cell-type and tissue contexts.

机构信息

DIANA-Lab, Department of Computer Science and Biomedical Informatics, Univ. of Thessaly, Lamia 35131, Greece.

Hellenic Pasteur Institute, Athens 11521, Greece.

出版信息

Nucleic Acids Res. 2023 Jul 5;51(W1):W154-W159. doi: 10.1093/nar/gkad431.


DOI:10.1093/nar/gkad431
PMID:37260078
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC10320185/
Abstract

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.

摘要

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。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f9b0/10320185/b2845d709f7c/gkad431fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f9b0/10320185/e78d064a57d2/gkad431figgra1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f9b0/10320185/dbc8441c0682/gkad431fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f9b0/10320185/b2845d709f7c/gkad431fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f9b0/10320185/e78d064a57d2/gkad431figgra1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f9b0/10320185/dbc8441c0682/gkad431fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f9b0/10320185/b2845d709f7c/gkad431fig2.jpg

相似文献

[1]
DIANA-miRPath v4.0: expanding target-based miRNA functional analysis in cell-type and tissue contexts.

Nucleic Acids Res. 2023-7-5

[2]
DIANA-miRPath v3.0: deciphering microRNA function with experimental support.

Nucleic Acids Res. 2015-7-1

[3]
DIANA miRPath v.2.0: investigating the combinatorial effect of microRNAs in pathways.

Nucleic Acids Res. 2012-5-30

[4]
DIANA-TarBase and DIANA Suite Tools: Studying Experimentally Supported microRNA Targets.

Curr Protoc Bioinformatics. 2016-9-7

[5]
Functional Analysis of miRNAs Using the DIANA Tools Online Suite.

Methods Mol Biol. 2017

[6]
DIANA-microT 2023: including predicted targets of virally encoded miRNAs.

Nucleic Acids Res. 2023-7-5

[7]
DIANA-microT web server v5.0: service integration into miRNA functional analysis workflows.

Nucleic Acids Res. 2013-5-16

[8]
DIANA-mirExTra v2.0: Uncovering microRNAs and transcription factors with crucial roles in NGS expression data.

Nucleic Acids Res. 2016-7-8

[9]
DIANA-TarBase v7.0: indexing more than half a million experimentally supported miRNA:mRNA interactions.

Nucleic Acids Res. 2015-1

[10]
DIANA-TarBase v8: a decade-long collection of experimentally supported miRNA-gene interactions.

Nucleic Acids Res. 2018-1-4

引用本文的文献

[1]
Exploring the role of gut probiotic metabolites in the prevention and treatment of otitis media.

Front Cell Infect Microbiol. 2025-8-15

[2]
MicroRNA-320а as a novel biomarker at preclinical stage of necrotizing enterocolitis in term neonates with congenital heart defects.

World J Clin Pediatr. 2025-9-9

[3]
Identification of Epigenetic Regulatory Networks of Gene Methylation-miRNA-Transcription Factor Feed-Forward Loops in Basal-like Breast Cancer.

Cells. 2025-8-10

[4]
Molecular profiling of neuronal extracellular vesicles reveals brain tissue specific signals.

Exposome. 2025-8-14

[5]
Inflammatory cytokine-primed MSC-derived extracellular vesicles ameliorate acute lung injury via enhanced immunomodulation and alveolar repair.

Stem Cell Res Ther. 2025-8-22

[6]
Unveiling Small Non-Coding RNA Dynamics During Recombinant Adeno-Associated Virus Production.

Biotechnol J. 2025-8

[7]
Multilevel systems biology analysis identifies key immune response profiles and potential correlates of protection for M72/AS01E vaccine against tuberculosis.

Clin Exp Vaccine Res. 2025-7

[8]
Brain-derived extracellular vesicle microRNAs in Lewy body and Alzheimer's disease.

bioRxiv. 2025-6-9

[9]
Deciphering the role of crucial miRNAs involved in diabetic cardiomyopathy through a multiomics approach.

Sci Rep. 2025-7-8

[10]
Dysregulated microRNAs in blood correlate with central nervous system neuropathology of prion disease.

Vet Res. 2025-7-1

本文引用的文献

[1]
DIANA-microT 2023: including predicted targets of virally encoded miRNAs.

Nucleic Acids Res. 2023-7-5

[2]
miRTarBase update 2022: an informative resource for experimentally validated miRNA-target interactions.

Nucleic Acids Res. 2022-1-7

[3]
MirGeneDB 2.1: toward a complete sampling of all major animal phyla.

Nucleic Acids Res. 2022-1-7

[4]
Genome-wide CRISPR-Cas9 screen identified KLF11 as a druggable suppressor for sarcoma cancer stem cells.

Sci Adv. 2021-1

[5]
The Gene Ontology resource: enriching a GOld mine.

Nucleic Acids Res. 2021-1-8

[6]
Ensembl 2021.

Nucleic Acids Res. 2021-1-8

[7]
Pfam: The protein families database in 2021.

Nucleic Acids Res. 2021-1-8

[8]
miEAA 2.0: integrating multi-species microRNA enrichment analysis and workflow management systems.

Nucleic Acids Res. 2020-7-2

[9]
Construction of a human cell landscape at single-cell level.

Nature. 2020-3-25

[10]
DIANA-LncBase v3: indexing experimentally supported miRNA targets on non-coding transcripts.

Nucleic Acids Res. 2020-1-8

文献AI研究员

20分钟写一篇综述,助力文献阅读效率提升50倍

立即体验

用中文搜PubMed

大模型驱动的PubMed中文搜索引擎

马上搜索

推荐工具

医学文档翻译智能文献检索