ENCODE
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publications – ENCODE
ENCODE comprises thousands of functional genomics datasets, and the encyclopedia covers hundreds of cell types, providing a universal annotation for genome interpretation.
Search – ENCODE
Homo sapiens activated CD4-positive, alpha-beta T cell male adult (20 years) treated with anti-CD3 and anti-CD28 coated beads for 36 hours
ENCODE Encyclopedia, Version 4: Genomic annotations – ENCODE
The ENCODE Consortium not only produces high-quality data, but also analyzes the data in an integrative fashion. The ENCODE Encyclopedia organizes the most salient analysis products …
ENCODE Encyclopedia
The ENCODE Project aims to map all functional elements of the human and mouse genomes. Progress toward this goal has involved over ten thousand epigenomic experiments utilizing a …
ATAC-seq Data Standards and Processing Pipeline – ENCODE
The ENCODE ATAC-seq pipeline is used for quality control and statistical signal processing of short-read sequencing data, producing alignments and measures of enrichment.
SCREEN: Search Candidate Regulatory Elements by ENCODE
SCREEN is a web interface for searching and visualizing the Registry of candidate cis-Regulatory Elements (cCREs) derived from ENCODE data. The Registry contains 1,063,878 human …
Getting Started – ENCODE
Introduction to the Portal Welcome to the ENCODE Portal! The ENCODE Portal, developed and maintained by the Data Coordination Center (ENCODE DCC), is the canonical source for all …
Project Overview – ENCODE
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 …
eCLIP Data Standards – ENCODE
ENCODE 3 Standards Experimental guidelines for eCLIP experiments can be found here. Experiments should have two or more biological replicates, isogenic or anisogenic. Antibodies …