ENCODE Project at UCSC Encyclopedia of DNA Elements at UCSC 2003 - 2012
Human Data at UCSC
Experiment Matrix
Genome Browser (hg19)
Experiment List
Cell Types
Mouse Data at UCSC
Experiment Matrix
Genome Browser (mm9)
Experiment List
Cell Types
Metadata Terms
Registered Variables
Other Resources
News Archive
First Production (2007-2012)
Pilot (2003-2007)


The Encyclopedia of DNA Elements (ENCODE) Consortium is an international collaboration of research groups funded by the National Human Genome Research Institute (NHGRI). The goal of ENCODE is to build a comprehensive parts list of functional elements in the human genome, including elements that act at the protein and RNA levels, and regulatory elements that control cells and circumstances in which a gene is active.

UCSC coordinated data for the ENCODE Consortium from its inception in 2003 (Pilot phase) to the end of the first 5 year phase of whole-genome data production in 2012. All data produced by ENCODE investigators and the results of ENCODE analysis projects from this period are hosted in the UCSC Genome browser and database. Explore ENCODE data using the image links below or via the left menu bar. All ENCODE data at UCSC are freely available for download and analysis.

ENCODE results from 2013 and later are available from the ENCODE Project Portal, encodeproject.org. The ENCODE Project Portal also hosts ENCODE data from the first production phase, additional ENCODE access tools, and ENCODE project pages including up-to-date information about data releases, publications, and upcoming tutorials.


29 Aug 2014 - New ENCODE portal launched at www.encodeproject.org

The website for up-to-date information about the ENCODE project is no longer hosted here at www.genome.ucsc.edu/ENCODE. These UCSC ENCODE pages now archive information and tools from the ENCODE production and pilot phases (2003 to 2012) including live links to visualize and download data. Please navigate to the new ENCODE portal for recent data releases. Along with the ability to use faceted searching to explore all ENCODE data, the ENCODE portal provides visualization in the UCSC Genome Browser via a "Visualize Data" link on assay pages when processed data files are available.

Explore ENCODE data at UCSC

View ENCODE data in the UCSC Genome Browser

Search for data at the ENCODE Portal

Search for ENCODE tracks in the UCSC Browser