TAILIEUCHUNG - Báo cáo y học: "ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing"

Tuyển tập các báo cáo nghiên cứu về y học được đăng trên tạp chí y học Wertheim cung cấp cho các bạn kiến thức về ngành y đề tài: ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing. | Li et al. Genome Biology 2010 11 R22 http 2010 11 2 R22 w Genome Biology SOFTWARE Open Access ChIA-PET tool for comprehensive chromatin interaction analysis with paired-end tag sequencing Guoliang Li 1 Melissa J Fullwood12 Han Xu 1 Fabianus Hendriyan Mulawadi 1 Stoyan Velkov1 Vinsensius Vega1 Pramila Nuwantha Ariyaratne1 Yusoff Bin Mohamed1 Hong-Sain Ooi1 Chandana Tennakoon3 Chia-Lin Wei2 Yijun Ruan 2 4 and Wing-Kin Sung 1 3 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 . Rationale Transcription factors and their three-dimensional interactions are crucial to gene regulation 1 2 . Many distal transcription factor binding sites have been identified by genome-wide chromatin experiments such as chromatin immunoprecipitation ChIP -chip 3 ChIP-paired-end tag PET 4 and ChIP-Seq 5 but it is not clear which of these distal transcription factor binding sites are real and functional in gene regulation and which are non-functional parking spots . Three-dimensional chromatin interactions have been shown to bring distal transcription factor binding sites into close spatial proximity to gene promoters 6 but global analysis of three-dimensional chromatin interactions has been limited by the lack of techniques for high-resolution and whole-genome analysis. Recently we developed a global de novo high-throughput method Chromatin interaction analysis with paired-end tag sequencing ChIA-PET for characterizing the threedimensional structures of

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