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Old 10-21-2013, 04:12 PM   #1
pmad
Bioinformatics Engineer
 
Location: University of Cambridge, UK

Join Date: Jun 2010
Posts: 14
Default DNaseR - DNase-seq digita genomic footprinting in R

Dear Bioinformatics community,

DNase-seq has been used to measure chromatin accessibility in a given
tissue or cell type on a genome-wide scale. In addition to DNaseI
hypersensitivite sites (DHSs), short regions of protected nucleotides
known as footprints can be detected, indicating transcription factor
binding ocuppancy events.

DNaseR, a new package for DNase I footprinting analysis of DNase-seq
data
has been released in the current version Bioconductor. Devel
version is at: http://bioconductor.org/packages/2.1...ml/DNaseR.html

DNaseR aims to detect protein binding footprints in DNase-seq data
from reads in BAM standard aligment format.


Best regards,
Pedro Madrigal
Research Associate
Wellcome Trust Sanger Institute
Wellcome Trust Genome
CampusHinxton,
Cambridge, CB10 1SAUK
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