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Chromatin connectivity maps reveal dynamic promoter–enhancer long-range associations

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  • Yubo Zhang

    (Sequencing Technology Group, Joint Genome Institute, Lawrence Berkeley National Laboratory, Walnut Creek, California 94598, USA
    Present addresses: Department of Life Sciences, Faculty of Natural Sciences, Ben-Gurion University of the Negev, Beer-Sheva 8410501, Israel (R.Y.B.); National Heart, Lung, and Blood Institute, National Institutes of Health, Systems Biology Center, 9000 Rockville Pike, Bethesda, Maryland 20892, USA (Y.Z.).)

  • Chee-Hong Wong

    (Sequencing Technology Group, Joint Genome Institute, Lawrence Berkeley National Laboratory, Walnut Creek, California 94598, USA)

  • Ramon Y. Birnbaum

    (Institute for Human Genetics, UCSF, San Francisco, California 94158, USA
    Present addresses: Department of Life Sciences, Faculty of Natural Sciences, Ben-Gurion University of the Negev, Beer-Sheva 8410501, Israel (R.Y.B.); National Heart, Lung, and Blood Institute, National Institutes of Health, Systems Biology Center, 9000 Rockville Pike, Bethesda, Maryland 20892, USA (Y.Z.).)

  • Guoliang Li

    (The Jackson Laboratory for Genomic Medicine, University of Connecticut
    Genome Institute of Singapore, 60 Biopolis Street, 138672 Singapore)

  • Rebecca Favaro

    (University of Milano-Bicocca, 20126 Milano, Italy)

  • Chew Yee Ngan

    (Sequencing Technology Group, Joint Genome Institute, Lawrence Berkeley National Laboratory, Walnut Creek, California 94598, USA)

  • Joanne Lim

    (Genome Institute of Singapore, 60 Biopolis Street, 138672 Singapore)

  • Eunice Tai

    (Genome Institute of Singapore, 60 Biopolis Street, 138672 Singapore)

  • Huay Mei Poh

    (Genome Institute of Singapore, 60 Biopolis Street, 138672 Singapore)

  • Eleanor Wong

    (Genome Institute of Singapore, 60 Biopolis Street, 138672 Singapore)

  • Fabianus Hendriyan Mulawadi

    (Genome Institute of Singapore, 60 Biopolis Street, 138672 Singapore)

  • Wing-Kin Sung

    (Genome Institute of Singapore, 60 Biopolis Street, 138672 Singapore)

  • Silvia Nicolis

    (University of Milano-Bicocca, 20126 Milano, Italy)

  • Nadav Ahituv

    (Institute for Human Genetics, UCSF, San Francisco, California 94158, USA)

  • Yijun Ruan

    (The Jackson Laboratory for Genomic Medicine, University of Connecticut)

  • Chia-Lin Wei

    (Sequencing Technology Group, Joint Genome Institute, Lawrence Berkeley National Laboratory, Walnut Creek, California 94598, USA
    Genome Institute of Singapore, 60 Biopolis Street, 138672 Singapore)

Abstract

A chromatin interaction analysis with paired-end tagging (ChIA-PET) approach is used to delineate chromatin interactions mediated by RNA polymerase II in several different stem-cell populations; putative long-range promoter–enhancer interactions are inferred, indicating that linear juxtaposition does not necessarily guide enhancer target selection and prevalent cell-specific enhancer usage.

Suggested Citation

  • Yubo Zhang & Chee-Hong Wong & Ramon Y. Birnbaum & Guoliang Li & Rebecca Favaro & Chew Yee Ngan & Joanne Lim & Eunice Tai & Huay Mei Poh & Eleanor Wong & Fabianus Hendriyan Mulawadi & Wing-Kin Sung & S, 2013. "Chromatin connectivity maps reveal dynamic promoter–enhancer long-range associations," Nature, Nature, vol. 504(7479), pages 306-310, December.
    • Handle: RePEc:nat:nature:v:504:y:2013:i:7479:d:10.1038_nature12716
    DOI: 10.1038/nature12716
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    Cited by:

    1. Ruitu Lyu & Yun Gao & Tong Wu & Chang Ye & Pingluan Wang & Chuan He, 2024. "Quantitative analysis of cis-regulatory elements in transcription with KAS-ATAC-seq," Nature Communications, Nature, vol. 15(1), pages 1-17, December.

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