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GSOAP: a tool for visualization of gene set over-representation analysis.
Bioinformatics ( IF 5.8 ) Pub Date : 2020-05-01 , DOI: 10.1093/bioinformatics/btaa001
Tomas Tokar 1 , Chiara Pastrello 1 , Igor Jurisica 1, 2, 3, 4
Affiliation  

MOTIVATION Gene sets over-representation analysis (GSOA) is a common technique of enrichment analysis that measures the overlap between a gene set and selected instances (e.g. pathways). Despite its popularity, there is currently no established standard for visualization of GSOA results. RESULTS Here, we propose a visual exploration of the GSOA results by showing the relationships among the enriched instances, while highlighting important instance attributes, such as significance, closeness (centrality) and clustering. AVAILABILITY AND IMPLEMENTATION GSOAP is implemented as an R package and is available at https://github.com/tomastokar/gsoap.

中文翻译:

GSOAP:基因集过度表现分析的可视化工具。

动机 基因集过度表现分析 (GSOA) 是一种常用的富集分析技术,用于测量基因集和选定实例(例如通路)之间的重叠。尽管它很受欢迎,但目前还没有建立 GSOA 结果可视化的标准。结果 在这里,我们通过显示丰富实例之间的关系,同时突出重要的实例属性,例如重要性、紧密度(中心性)和聚类,提出了对 GSOA 结果的可视化探索。可用性和实现 GSOAP 作为 R 包实现,可在 https://github.com/tomastokar/gsoap 获得。
更新日期:2020-01-24
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