rrvgo: a Bioconductor package for interpreting lists of Gene Ontology terms.
rrvgo: a Bioconductor package for interpreting lists of Gene Ontology terms.
复制标题
DOI：
10.17912/micropub.biology.000811
复制
发表时间：
2023
影响因子：
--
通讯作者：
Sayols, Sergi
中科院分区：
文献类型：
--
作者：
Sayols, Sergi
基因本体（GO）注释通常用于指导高通量组学实验的生物学解释，例如通过分析差异调节基因的列表以获得富集的GO术语。由于术语表的层次性，由此产生的丰富术语列表通常是冗余的，难以总结和解释。为了便于解释大量GO术语，我开发了rrvgo，这是一个Bioconductor包，旨在通过基于语义相似性对相似术语进行分组来简化GO列表的冗余。rrvgo还提供了不同的可视化选项来指导对汇总的GO术语的解释。考虑到已经为此开发了几种软件工具，rrvgo在将强大的可视化功能与Bioconductor项目提供的最新GO基因注释结合在一起的编程界面中是独一无二的。
Gene Ontology (GO) annotation is often used to guide the biological interpretation of high-throughput omics experiments, e.g. by analysing lists of differentially regulated genes for enriched GO terms. Due to the hierarchical nature of GOs, the resulting lists of enriched terms are usually redundant and difficult to summarise and interpret. To facilitate the interpretation of large lists of GO terms, I developed rrvgo, a Bioconductor package that aims at simplifying the redundancy of GO lists by grouping similar terms based on their semantic similarity. rrvgo also provides different visualization options to guide the interpretation of the summarized GO terms. Considering that several software tools have been developed for this purpose, rrvgo is unique at combining powerful visualizations in a programmatic interface coupled with up-to-date GO gene annotation provided by the Bioconductor project.