ENCODE: Encyclopedia of DNA Elements



The ENCODE (Encyclopedia of DNA Elements) 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.

Image credits: Darryl Leja (NHGRI), Ian Dunham (EBI), Michael Pazin (NHGRI)




Quick Start

To find and download ENCODE Consortium data:

Additional help using the ENCODE Portal:

ENCODE investigators employ a variety of assays and methods to identify functional elements. The discovery and annotation of gene elements is accomplished primarily by sequencing a diverse range of RNA sources, comparative genomics, integrative bioinformatic methods, and human curation. Regulatory elements are typically investigated through DNA hypersensitivity assays, assays of DNA methylation, and immunoprecipitation (IP) of proteins that interact with DNA and RNA, i.e., modified histones, transcription factors, chromatin regulators, and RNA-binding proteins, followed by sequencing.

All ENCODE data is freely available for download and analysis. Please refer to the ENCODE Data Release Policy


May 24th, 2016: ​50 additional modERN data released! [read more]

May 13th, 2016: The first ENCODE Hi-C data is released. [read more]

May 10th, 2016: We are pleased to announce the release of modERN data. [read more]

May 9th, 2016: Registration deadline is May 20th for the upcoming ENCODE Users Meeting - spaces are filling up. Register here!

May 5th, 2016: We are pleased to announce the first release on the ENCODE portal of Genomics of Gene Regulation data, an RNA-seq and a DNase-seq treatment time series of 100nM dexamethasone on the A549 cell line. [read more

May 3rd, 2016: Data release: 180 datasets released in April - including human, mouse and fly!

April 26th, 2016: Kudos to our ENCODE collaborators, the Yeo lab, for their recent publication in Nature Methods. Check out all the eCLIP data here.

April 15, 2016: Abstract deadline for talk consideration at the 2016 ENCODE Users Meeting is May 16th, 2016.  Register and submit abstract here!

April 1, 2016: Data release: 306 human datasets and 188 mouse datasets. [read more]

See our news archive for additional news and updates.