EpiExplorer is a web tool that allows you to use large reference epigenome datasets for your own analysis without complex scripting or laborous preprocessing.

EpiExplorer has been decommissioned because its technological basis is no longer supported. Unfortunately, there is currently no other tool that provides a perfect replacement of EpiExplorer's interactive discovery. Potential substitutes for EpiExplorer are Galaxy and DeepBlue.

Galaxy: Web-based interface for processing genomic data in an interactive, batch-based manner.
Afgan E, Baker D, Batut B, van den Beek M, Bouvier D, Cech M, Chilton J, Clements D, Coraor N, Gruning BA, Guerler A, Hillman-Jackson J, Hiltemann S, Jalili V, Rasche H, Soranzo N, Goecks J, Taylor J, Nekrutenko A, Blankenberg D (2018).
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update. Nucleic Acids Research 46, W537-W544.

DeepBlue: Web-based interface for interactive access to large collections of epigenomic data https://deepblue.mpi-inf.mpg.de/ Albrecht F, List M, Bock C, Lengauer T (2016).
DeepBlue epigenomic data server: programmatic data retrieval and analysis of epigenome region sets. Nucleic Acids Research 44, W581-586.

Getting started

If this is your first time using EpiExplorer, please have a quick look at the introductory slide-show tutorials:

Getting started with EpiExplorer

Adding your dataset(s) in 5 steps

Comparing two datasets side-by-side

Saving, exporting and sharing EpiExplorer results

Privacy and confidentiality or what happens with your data when you upload it?

How to test an EpiExplorer overlap for significance using the Genomic HyperBrowser?

Full listing of the genomic and epigenomic annotations currently available in EpiExplorer

(NEW!) Utilizing epigenome annotations base genome coverage as alternative control (or introducing the bubble chart)

About EpiExplorer

EpiExplorer was developed in the Computational Epigenetics Group at the Max-Planck Institute for Informatics. EpiExplorer was published at Genome Biology http://genomebiology.com/2012/13/10/R96. Please, cite as

Halachev K, Bast H, Albrecht F, Lengauer T, Bock C: EpiExplorer: live exploration and global analysis of large epigenomic datasets. Genome Biol (2012), 13:R96

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