The Time Course Expression Analysis tool allows performing a differential expression analysis of expression data arising from a time course RNA-seq experiment. This application is based on the maSigPro Bioconductor package, which implements a two-step regression strategy to detect genes with significant temporal expression changes and significant differences between experimental groups.
This video shows the analysis of count data coming from an experiment in which the expression levels of tumor and normal human cells were measured at different times.
Nueda MJ, Tarazona S and Conesa A (2014). “Next maSigPro: updating maSigPro Bioconductor package for RNA-seq time series.” Bioinformatics, 30, p. 2598-2602.