Digital Expression Explorer 2

Digital Expression Explorer 2 (DEE2) is a repository of uniformly processed RNA-seq data mined from public data obtained from NCBI Short Read Archive.

Users please note

Data processing is still underway and these pages are still under construction until the official announcement day. Any feedback is appreciated.

Hosted RNA-seq data

Select an organism of interest

Search for data sets of interest

Search accession numbers Multiple accessions can be separated by commas. Try GSE63462,SRP070529,SRR401430 for A. thaliana.

Search for keywords Case-insensitive single word search.
Try "pathogen" for E. coli.

More sophisticated keyword searches can be done at GEO and SRA, to identify studies and accession numbers of interest.

Keyword searches in mouse and human take up to a minute to complete.


Although all reasonable efforts have been taken to ensure the accuracy and reliability of the data, Deakin and Monash Universities do not and cannot warrant the performance or results that may be obtained by using this software or data. Deakin and Monash disclaim all warranties, express or implied, including warranties of performance, merchantability or fitness for any particular purpose.


Ziemann M, Kaspi A, El-Osta A. Digital Expression Explorer 2: a repository of 4.5 trillion uniformly processed RNA-seq reads and counting. ABACBS2018 DOI:10.5281/zenodo.1561839.

Ziemann M, Kaspi A, Lazarus R, El-Osta A. Digital Expression Explorer: A user-friendly repository of uniformly processed RNA-seq data. ComBio2015 DOI:10.13140/RG.2.1.1707.5926 See our poster