ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing

Chromatin interaction analysis with paired-end tag sequencing (ChIA-PET) is a new technology to study genome-wide long-range chromatin interactions bound by protein factors. Here we present ChIA-PET Tool, a software package for automatic processing of ChIA-PET sequence data, including linker filteri...

Full description

Saved in:
Bibliographic Details
Published in:Genome biology 2010-02, Vol.11 (2), p.R22-R22, Article R22
Main Authors: Li, Guoliang, Fullwood, Melissa J, Xu, Han, Mulawadi, Fabianus Hendriyan, Velkov, Stoyan, Vega, Vinsensius, Ariyaratne, Pramila Nuwantha, Mohamed, Yusoff Bin, Ooi, Hong-Sain, Tennakoon, Chandana, Wei, Chia-Lin, Ruan, Yijun, Sung, Wing-Kin
Format: Article
Language:English
Subjects:
Binding Sites - genetics
Chromatin - chemistry
Chromatin - metabolism
Chromatin Immunoprecipitation
DNA-Binding Proteins - chemistry
DNA-Binding Proteins - metabolism
Genome, Human
Humans
Protein Binding
Sequence Analysis, DNA - methods
Software
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:Chromatin interaction analysis with paired-end tag sequencing (ChIA-PET) is a new technology to study genome-wide long-range chromatin interactions bound by protein factors. Here we present ChIA-PET Tool, a software package for automatic processing of ChIA-PET sequence data, including linker filtering, mapping tags to reference genomes, identifying protein binding sites and chromatin interactions, and displaying the results on a graphical genome browser. ChIA-PET Tool is fast, accurate, comprehensive, user-friendly, and open source (available at http://chiapet.gis.a-star.edu.sg).
ISSN:1474-760X
1465-6906
1474-760X
1465-6914
DOI:10.1186/gb-2010-11-2-r22