A powerful and flexible tool for rapid and accurate differential expression and alternative splicing analysis of RNA-seq data for biologists
A powerful and flexible tool for rapid and accurate differential expression and alternative splicing analysis of RNA-seq data for biologists
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DOI：
10.1101/656686
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发表时间：
2019-05
期刊：
影响因子：
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通讯作者：
Wenbin Guo;Nikoleta A Tzioutziou;Gordon Stephen;Iain Milne;C. Calixto;R. Waugh;John W. S. Brown
中科院分区：
文献类型：
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作者：
Wenbin Guo;Nikoleta A Tzioutziou;Gordon Stephen;Iain Milne;C. Calixto;R. Waugh;John W. S. Brown
基因表达和选择性剪接的RNA-seq分析应该是常规和稳健的，但由于依赖于专业的生物信息学技能，这往往是生物学家的瓶颈。因此，我们开发了“3D RNA-seq”，这是一个基于R shining App和Web的服务，它为RNA-seq数据的三组分分析提供了一个易于使用，灵活和强大的工具：差异表达，差异选择剪接和差异转录本使用。3D RNA-seq集成了最先进的、高评价的差异表达分析工具，并采用了RNA-seq分析的最佳实践。它通过用户友好的图形界面运行，可以处理复杂的实验设计，允许设置统计参数，通过图形和表格跟踪结果，并生成图形和综合报告，以保证再现性。3D RNA-seq可以应用于任何物种，并被设计为由没有编程技能的生物学家（或生物信息学家）运行，允许实验室科学家对RNA-seq数据进行快速准确的分析。
RNA-seq analysis of gene expression and alternative splicing should be routine and robust but is often a bottleneck for biologists because of reliance on specialized bioinformatics skills. Thus, we have developed “3D RNA-seq”, an R shiny App and web based service which provides an easy-to-use, flexible and powerful tool for three-component analysis of RNA-seq data: Differential Expression, Differential Alternative Splicing and Differential Transcript Usage. 3D RNA-seq integrates state-of-the-art, highly rated differential expression analysis tools and adopts best practice for RNA-seq analysis. It operates through a user-friendly graphical interface, can handle complex experimental designs, allows setting of statistical parameters, tracks results through graphics and tables, and generates figures and a comprehensive report that will guarantee reproducibility. 3D RNA-seq can be applied to any species and is designed to be run by biologists with no programming skills (or by bioinformaticians) allowing lab scientists to perform rapid and accurate analysis of RNA-seq data.