Friday, March 29, 2013

Fwd: CistromeFinder for ChIP-seq and DNase-seq data reuse

Fwd: please follow footer link

CistromeFinder for ChIP-seq and DNase-seq data reuse: "

Summary: ChIP-seq and DNase-seq have greatly accelerated the understanding of transcriptional and epigenetic regulation, although data reuse for the community of experimental biologists has been challenging. We created a data portal CistromeFinder that can help query, evaluate and visualize publicly available ChIP-seq and DNase-seq data in human and mouse. The database currently contains 6,378 samples over 4,391 datasets, 313 factors, and 102 cell lines or cell populations. Each dataset has gone through a consistent analysis and quality control pipeline, so users could evaluate the overall quality of each dataset before examining binding sites near their genes of interest. CistromeFinder is integrated with UCSC genome browser for visualization, Primer3Plus for ChIP-qPCR primer design, and CistromeMap for submitting newly available datasets. It also allows users to leave comments to facilitate data evaluation and update.

Availability:http://cistrome.org/finder.

Contact:xsliu@jimmy.harvard.edu; henry_long@dfci.harvard.edu

"

(Via Bioinformatics - Advance Access.)