ENCODE
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publications – ENCODE
The Encyclopedia of DNA Elements (ENCODE) project has established a genomic resource for mammalian development, profiling a diverse panel of mouse tissues at 8 developmental stages from …
Search – ENCODE
Lab: John Stamatoyannopoulos, UW Project: ENCODE Treatments: 10 ng/mL Interleukin-2 (UniProtKB:P60568) for 5 days, anti-CD3 and anti-CD28 coated beads for 7 days Experiment …
Getting Started – ENCODE
The ENCODE Portal, developed and maintained by the Data Coordination Center (ENCODE DCC), is the canonical source for all experimental metadata and data from ENCODE and associated projects.
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 that control cells …
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.
Data Processing Pipelines – ENCODE
The ENCODE Data Coordinating Center Uniform Processing Pipelines are designed to create high-quality, consistent, and reproducible data. Pipelines are composed of discrete steps that can …
Data standards – ENCODE
The ENCODE Consortium has adopted shared experimental guidelines for the most common ENCODE assays. The guidelines have evolved over time as technologies have changed, and current …
Access to ENCODE data
The ENCODE Portal serves as the primary source of ENCODE data and information about the ENCODE Consortium. The ENCODE portal contains these features to access, view, and download …
eCLIP Data Standards – ENCODE
Antibodies must be characterized according to standards set by the ENCODE Consortium. Please see the linked documents for transcription factor standards (May 2016), histone modification and …