Compare two conditions using iDEP

Here you can analyze RNA-Seq data using the IDEP Shiny app. iDEP (integrated Differential Expression and Pathway analysis) is a web-based tool for analyzing RNA-seq data, available at It reads in gene-level expression data (read counts or FPKM), performs exploratory data analysis (EDA), differential expression, pathway analysis, biclustering, and co-expression network analysis.

For more information and help about this tool, please look at:
If you use this analytic module, please cite: Ge, S.X., Son, E.W. & Yao, R. iDEP: an integrated web application for differential expression and pathway analysis of RNA-Seq data. BMC Bioinformatics 19, 534 (2018).
Analyse public RNA-Seq dataset
Analyse your own data

Visualize multiple precomputed comparisons for a subset of genes

Choose comparisons and upload your gene subset