Signac.UIO:An Interactive R-Shiny Platform for Single-cell ATAC-seq Data Analysis and Visualization
10.13865/j.cnki.cjbmb.2025.09.1270
- VernacularTitle:Signac.UIO:基于R-Shiny技术的单细胞ATAC-seq数据交互式分析平台构建与应用
- Author:
Yu-Yan LUO
1
;
Xiao-Min LUO
;
Jie-Ru HUANG
;
Si-Wen XU
Author Information
1. 广东药科大学医药信息工程学院,生物信息系,广州 510006
- Publication Type:Journal Article
- Keywords:
single-cell assay for transposase-accessible chromatin sequencing(scATAC-seq);
R-based Shiny application(R-Shiny);
interactive analysis platform;
data visualization;
bioinformatics tool
- From:
Chinese Journal of Biochemistry and Molecular Biology
2025;41(11):1579-1589
- CountryChina
- Language:Chinese
-
Abstract:
Single-cell assay for transposase-accessible chromatin sequencing(scATAC-seq)is a power-ful technique for studying cellular heterogeneity and gene regulatory networks,widely applied in epigenet-ic research.However,the complexity of data analysis workflows and high programming requirements have limited its broader adoption among non-programmer researchers.To address this issue,we developed Sig-nac.UIO,a modular and visual scATAC-seq analysis platform based on the R Shiny framework,integra-ting mainstream tools such as Signac and Seurat.The platform includes ten key modules covering quality control,cell filtering,dimensionality reduction,clustering,differential analysis,cell annotation,path-way enrichment,motif analysis,and transcription factor footprinting.Through a graphical user interface,users can perform full analyses and obtain interactive visualization results.The platform's stability and u-tility have been validated using a public PBMC dataset and it is currently deployed online(https://xula-bgdpu.org.cn/Signac.UIO),providing an efficient and user-friendly tool for single-cell epigenomics re-search.
