Shiny-DEG: A Web Application to Analyze and Visualize Differentially Expressed Genes in RNA-seq
Shiny-DEG: A Web Application to Analyze and Visualize Differentially Expressed Genes in RNA-seq
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Shiny-DEG：用于分析和可视化 RNA-seq 中差异表达基因的 Web 应用程序
DOI：
10.1007/s12539-020-00383-7
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发表时间：
2020-07
期刊：
影响因子：
--
通讯作者：
Yang Hui
中科院分区：
文献类型：
--
作者：
Wang Sufang;Zhang Yu;Hu Congzhan;Zhang Nu;Gribskov Michael;Yang Hui
摘要RNA-seq分析已成为生物学和医学实验中最广泛使用的方法之一，旨在大规模鉴定差异表达基因。然而，由于缺乏编程技能和统计学背景，包括教师和学生在内的生物学家很难完全理解RNA-seq结果是什么以及如何解释它们。近年来，尽管有一些程序或网站帮助研究人员分析和可视化NGS结果，但它们有一些局限性。因此，开发了Shiny-DEG，这是一个网络应用程序，有助于从RNA-seq中探索和可视化差异表达的基因。它集成了多因素设计实验，允许用户根据实验目的交互修改参数，所有分析结果可以直接下载，旨在进一步帮助解释和解释生物学问题。因此，它更适合没有编程技能的生物学家。总体而言，本项目对揭示转录组差异的机制具有重要意义。
AbstractRNA-seq analysis has become one of the most widely used methods for biological and medical experiments, aiming to identify differentially expressed genes at a large scale. However, due to lack of programming skills and statistical background, it is difficult for biologists including faculty and students to fully understand what the RNA-seq results are and how to interpret them. In recent years, even though, there are several programs or websites that assist researchers to analyze and visualize NGS results, they have several limitations. Therefore, Shiny-DEG, a web application that facilitates the exploration and visualization of differentially expressed genes from RNA-seq, was developed. It integrates multi-factor design experiments, allows users to modify the parameters interactively according to experiments purpose and all analysis results can be downloaded directly, aiming to further assisting the interpretation and explanation of the biological questions. Therefore, it serves better for biologists without programming skills. Overall, this project is of great significance to reveal the mechanism of transcriptome differences.
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