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


Ontology type: schema:ScholarlyArticle      Open Access: True


Article Info

DATE

2016-11

AUTHORS

Maxwell R Mumbach, Adam J Rubin, Ryan A Flynn, Chao Dai, Paul A Khavari, William J Greenleaf, Howard Y Chang

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. More... »

PAGES

919-922

References to SciGraph publications

  • 2012-04-11. Topological domains in mammalian genomes identified by analysis of chromatin interactions in NATURE
  • 2008-11. Model-based Analysis of ChIP-Seq (MACS) in GENOME BIOLOGY
  • 2016-07-18. Structural organization of the inactive X chromosome in the mouse in NATURE
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  • 2015-12. Comparison of Hi-C results using in-solution versus in-nucleus ligation in GENOME BIOLOGY
  • 2015-10. ChIPmentation: fast, robust, low-input ChIP-seq for histones and transcription factors in NATURE METHODS
  • 2010-09. Mediator and cohesin connect gene expression and chromatin architecture in NATURE
  • 2014-12. Targeted Chromatin Capture (T2C): a novel high resolution high throughput method to detect genomic interactions and regulatory elements in EPIGENETICS & CHROMATIN
  • 2016-01. Multiplexed analysis of chromosome conformation at vastly improved sensitivity in NATURE METHODS
  • 2013-11. A high-resolution map of the three-dimensional chromatin interactome in human cells in NATURE
  • 2015-12. HiC-Pro: an optimized and flexible pipeline for Hi-C data processing in GENOME BIOLOGY
  • 2014-02. Analysis of hundreds of cis-regulatory landscapes at high resolution in a single, high-throughput experiment in NATURE GENETICS
  • 2012-04-11. Spatial partitioning of the regulatory landscape of the X-inactivation centre in NATURE
  • Identifiers

    URI

    http://scigraph.springernature.com/pub.10.1038/nmeth.3999

    DOI

    http://dx.doi.org/10.1038/nmeth.3999

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