1. ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing
- Author
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Chandana Tennakoon, Pramila N. Ariyaratne, Fabianus Hendriyan Mulawadi, Wing-Kin Sung, Stoyan Velkov, Melissa J. Fullwood, Hong Sain Ooi, Chia-Lin Wei, Han Xu, Yusoff Bin Mohamed, Vinsensius B. Vega, Guoliang Li, and Yijun Ruan
- Subjects
Chromatin Immunoprecipitation ,Sequence analysis ,Genome browser ,Computational biology ,Biology ,Genome ,03 medical and health sciences ,0302 clinical medicine ,Humans ,natural sciences ,ChIA-PET ,030304 developmental biology ,Genetics ,0303 health sciences ,Binding Sites ,Genome, Human ,fungi ,food and beverages ,Sequence Analysis, DNA ,Chromatin ,3. Good health ,ChIP-sequencing ,DNA-Binding Proteins ,Chromatin immunoprecipitation ,Linker ,030217 neurology & neurosurgery ,Software ,Protein Binding - Abstract
ChIA-PET Tool can be used to process long-range chromatin interaction data. Results are visualized on a user-friendly genome browser., 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).
- Published
- 2010