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

News 

July 21st, 2016: Check out the latest GGR release from the Reddy lab, here on the portal, 84 ChIP-seq expts in A549 +/- dex treatment.

July 20th, 2016: Mouse e10.5 histone ChIP-seq dataset from from the Ren lab available on the portal here.

July 6th, 2016: 367 modERN experiments released today! [read more]

June 29th, 2016: 182 new experiments were released in June 2016! [read more]

June 13th, 2016: ENCODE's own Gene Yeo will be chairing “Computational Methods for RNA Data Analysis” and running a workshop with Yoseph Barash at RNA 2016 (http://www2.convention.co.jp/rna2016/ )

June 10th, 2016: Thanks for a wonderful Users Meeting! Keep checking out www.encode2016.org for links to participants, presentations, pictures, and soon - videos of the talks.  

June 8th, 2016: ENCODE Users Meeting is underway!  Follow along on Twitter #EUM16.  Slides and presentations will be available on the portal soon. 

May 24th, 2016: ​50 additional modERN data released!

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]

See our news archive for additional news and updates.