ChIA-PET
The PET tags are extracted and mapped to the reference human genome in-silico.
ChIA-PET is an unbiased, whole-genome and de-novo approach for long-range chromatin interaction analysis.
A ChIA-PET experiment is capable of providing two global datasets: The protein factor binding sites (self-ligated PETs); and The interactions between the binding sites (inter-ligated PETs).
ChIA-PET involves ChIP to reduce the complexity for genome-wide analysis and adds specificity to chromatin interactions bound by specific factors of interest.
ChIA-PET is compatible with tag-based next-generation sequencing approaches such as Roche 454 pyrosequencing, Illumina GA, ABI SOLiD, and Helicos.