DEApp: an interactive web interface for differential expression analysis of next generation sequence data

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• 作者：Yan Li ; Jorge Andrade
• 关键词：Next Generation Sequence (NGS) ; Differential Expression (DE) analysis ; Web interface ; R ; Shiny ; Genomics
• 刊名：Source Code for Biology and Medicine
• 出版年：2017
• 出版时间：December 2017
• 年：2017
• 卷：12
• 期：1
• 全文大小：605KB
• 刊物主题：Computer Appl. in Life Sciences; Computational Biology/Bioinformatics; Bioinformatics;
• 出版者：BioMed Central
• ISSN：1751-0473
• 卷排序：12

文摘

BackgroundA growing trend in the biomedical community is the use of Next Generation Sequencing (NGS) technologies in genomics research. The complexity of downstream differential expression (DE) analysis is however still challenging, as it requires sufficient computer programing and command-line knowledge. Furthermore, researchers often need to evaluate and visualize interactively the effect of using differential statistical and error models, assess the impact of selecting different parameters and cutoffs, and finally explore the overlapping consensus of cross-validated results obtained with different methods. This represents a bottleneck that slows down or impedes the adoption of NGS technologies in many labs.