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Temporal dynamic reorganization of 3D chromatin architecture in hormone-induced breast cancer and endocrine resistance

Author

Listed:
  • Yufan Zhou

    (University of Texas Health San Antonio)

  • Diana L. Gerrard

    (University of Vermont)

  • Junbai Wang

    (Oslo University Hospital—Norwegian Radium Hospital)

  • Tian Li

    (University of Texas Health San Antonio)

  • Yini Yang

    (University of Texas Health San Antonio)

  • Andrew J. Fritz

    (University of Vermont)

  • Mahitha Rajendran

    (Baylor College of Medicine
    Baylor College of Medicine
    Baylor College of Medicine
    Baylor College of Medicine)

  • Xiaoyong Fu

    (Baylor College of Medicine
    Baylor College of Medicine
    Baylor College of Medicine
    Baylor College of Medicine)

  • Gary Stein

    (University of Vermont Larner College of Medicine)

  • Rachel Schiff

    (Baylor College of Medicine
    Baylor College of Medicine
    Baylor College of Medicine
    Baylor College of Medicine)

  • Shili Lin

    (The Ohio State University)

  • Seth Frietze

    (University of Vermont)

  • Victor X. Jin

    (University of Texas Health San Antonio)

Abstract

Recent studies have demonstrated that chromatin architecture is linked to the progression of cancers. However, the roles of 3D structure and its dynamics in hormone-dependent breast cancer and endocrine resistance are largely unknown. Here we report the dynamics of 3D chromatin structure across a time course of estradiol (E2) stimulation in human estrogen receptor α (ERα)-positive breast cancer cells. We identified subsets of temporally highly dynamic compartments predominantly associated with active open chromatin and found that these highly dynamic compartments showed higher alteration in tamoxifen-resistant breast cancer cells. Remarkably, these compartments are characterized by active chromatin states, and enhanced ERα binding but decreased transcription factor CCCTC-binding factor (CTCF) binding. We finally identified a set of ERα-bound promoter–enhancer looping genes enclosed within altered domains that are enriched with cancer invasion, aggressiveness or metabolism signaling pathways. This large-scale analysis expands our understanding of high-order temporal chromatin reorganization underlying hormone-dependent breast cancer.

Suggested Citation

  • Yufan Zhou & Diana L. Gerrard & Junbai Wang & Tian Li & Yini Yang & Andrew J. Fritz & Mahitha Rajendran & Xiaoyong Fu & Gary Stein & Rachel Schiff & Shili Lin & Seth Frietze & Victor X. Jin, 2019. "Temporal dynamic reorganization of 3D chromatin architecture in hormone-induced breast cancer and endocrine resistance," Nature Communications, Nature, vol. 10(1), pages 1-14, December.
    • Handle: RePEc:nat:natcom:v:10:y:2019:i:1:d:10.1038_s41467-019-09320-9
    DOI: 10.1038/s41467-019-09320-9
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    Cited by:

    1. Yufan Zhou & Tian Li & Lavanya Choppavarapu & Kun Fang & Shili Lin & Victor X. Jin, 2024. "Integration of scHi-C and scRNA-seq data defines distinct 3D-regulated and biological-context dependent cell subpopulations," Nature Communications, Nature, vol. 15(1), pages 1-11, December.

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