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. 2016 Nov;13(11):919-922.
doi: 10.1038/nmeth.3999. Epub 2016 Sep 19.

HiChIP: efficient and sensitive analysis of protein-directed genome architecture

Maxwell R Mumbach  1   2   3 , Adam J Rubin  2 , Ryan A Flynn  1   2 , Chao Dai  1   2 , Paul A Khavari  2 , William J Greenleaf  1   3   4 , Howard Y Chang  1   2
Affiliations

HiChIP: efficient and sensitive analysis of protein-directed genome architecture

Maxwell R Mumbach et al. Nat Methods. 2016 Nov.

Abstract

Genome conformation is central to gene control but challenging to interrogate. Here we present HiChIP, a protein-centric chromatin conformation method. HiChIP improves the yield of conformation-informative reads by over 10-fold and lowers the input requirement over 100-fold relative to that of ChIA-PET. HiChIP of cohesin reveals multiscale genome architecture with greater signal-to-background ratios than those of in situ Hi-C.

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Conflict of interest statement

Competing Financial Interests

The authors declare no competing financial interests.

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References

    1. Lieberman-Aiden E, et al. Comprehensive mapping of long-range interactions reveals folding principles of the human genome. Science. 2009;326:289–293. - PMC - PubMed
    1. Dixon JR, et al. Topological domains in mammalian genomes identified by analysis of chromatin interactions. Nature. 2012;485:376–380. - PMC - PubMed
    1. Jin F, et al. A high-resolution map of the three-dimensional chromatin interactome in human cells. Nature. 2013;503:290–294. - PMC - PubMed
    1. Naumova N, et al. Organization of the mitotic chromosome. Science. 2013;342:948–953. - PMC - PubMed
    1. Rao SSP, et al. A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping. Cell. 2014;159:1665–1680. - PMC - PubMed

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