Yale ENCODE Project Overview

The Yale ENCODE Project (YEP) is a member of the NIH/NHGRI ENCODE Consortium. The goal of the consortium is to obtain a coordinated and comprehensive picture of the transcribed regions and factors that regulate or affect transcriptional activity over the genomic regions selected as part of the ENCODE (ENCyclopedia Of DNA Elements) project. About 1 percent of the human genome (30Mb) has been selected as Phase I of the ENCODE project (ENCODE Region Picks).

Specific aims of the Yale ENCODE Project:

  1. Construct and compare tiling arrays (NASA, Affymetrix, PCR) for the ENCODE regions.
  2. Identify and analyze regions with transcriptional activity (polyadenylated mRNA).
  3. Identify and analyze transcription factor binding sites (using chromatin immunoprecipitation techniques) and other chromosomal proteins. Examine chromatin modifications.
  4. Analyze DNA methylation patterns.
  5. Publish the results in a publicly accessible database.

A collection of Tiling Tools have been created in order to tile genomic regions for both PCR and oligonucleotide based microarrays.

ENCODE Related Documents

Papers and Other Public Information Related to ENCODE

Gerstein Lab ENCODE Page (password required)

Available Yale ENCODE data

Consensus ENCODE Pseudogenes (from pseudogene.org)

ENCODE Mailing List Archive