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ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing |
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| Authors: | Guoliang Li Melissa J Fullwood Han Xu Fabianus Hendriyan Mulawadi Stoyan Velkov Vinsensius Vega Pramila Nuwantha Ariyaratne Yusoff Bin Mohamed Hong-Sain Ooi Chandana Tennakoon Chia-Lin Wei Yijun Ruan Wing-Kin Sung |
| Institution: | 1. Computational and Mathematical Biology, Genome Institute of Singapore, 60 Biopolis Street, Singapore, 138672, Republic of Singapore 2. Genomic Technologies, Genome Institute of Singapore, 60 Biopolis Street, Singapore, 138672, Republic of Singapore 3. Department of Computer Science, School of Computing, National University of Singapore, 13 Computing Drive, Singapore, 117417, Republic of Singapore 4. Department of Biochemistry, Yong Loo Lin School of Medicine, National University of Singapore, 8 Medical Drive, Singapore, 117597, Republic of Singapore |
| Abstract: | 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). |
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