CEAS: cis-regulatory element annotation system
We present a tool designed to characterize genome-wide protein–DNA interaction patterns
from ChIP-chip and ChIP-Seq data. This stand-alone extension of our web application CEAS
(cis-regulatory element annotation system) provides summary statistics on ChIP enrichment
in important genomic regions such as individual chromosomes, promoters, gene bodies or
exons, and infers the genes most likely to be regulated by the binding factor under study.
CEAS also enables biologists to visualize the average ChIP enrichment signals over specific …
from ChIP-chip and ChIP-Seq data. This stand-alone extension of our web application CEAS
(cis-regulatory element annotation system) provides summary statistics on ChIP enrichment
in important genomic regions such as individual chromosomes, promoters, gene bodies or
exons, and infers the genes most likely to be regulated by the binding factor under study.
CEAS also enables biologists to visualize the average ChIP enrichment signals over specific …
Abstract
Summary: We present a tool designed to characterize genome-wide protein–DNA interaction patterns from ChIP-chip and ChIP-Seq data. This stand-alone extension of our web application CEAS (cis-regulatory element annotation system) provides summary statistics on ChIP enrichment in important genomic regions such as individual chromosomes, promoters, gene bodies or exons, and infers the genes most likely to be regulated by the binding factor under study. CEAS also enables biologists to visualize the average ChIP enrichment signals over specific genomic regions, particularly allowing observation of continuous and broad ChIP enrichment that might be too subtle to detect from ChIP peaks alone.
Availability: The CEAS Python package is publicly available at http://liulab.dfci.harvard.edu/CEAS.
Contact: shin@jimmy.harvard.edu; xsliu@jimmy.harvard.edu
Supplementary information: Supplementary data are available at Bioinformatics online.
Oxford University Press