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Dissecting neural differentiation regulatory networks through epigenetic footprinting

Author

Listed:
  • Michael J. Ziller

    (Broad Institute of MIT and Harvard
    Harvard Stem Cell Institute
    Harvard University)

  • Reuven Edri

    (Sackler School of Medicine, Tel Aviv University, Ramat Aviv 6997801, Israel)

  • Yakey Yaffe

    (Sackler School of Medicine, Tel Aviv University, Ramat Aviv 6997801, Israel)

  • Julie Donaghey

    (Broad Institute of MIT and Harvard
    Harvard Stem Cell Institute
    Harvard University)

  • Ramona Pop

    (Broad Institute of MIT and Harvard
    Harvard Stem Cell Institute
    Harvard University)

  • William Mallard

    (Broad Institute of MIT and Harvard
    Harvard University)

  • Robbyn Issner

    (Broad Institute of MIT and Harvard)

  • Casey A. Gifford

    (Broad Institute of MIT and Harvard
    Harvard Stem Cell Institute
    Harvard University)

  • Alon Goren

    (Broad Institute of MIT and Harvard
    Massachusetts General Hospital and Harvard Medical School
    Center for Systems Biology and Center for Cancer Research, Massachusetts General Hospital)

  • Jeffrey Xing

    (Broad Institute of MIT and Harvard)

  • Hongcang Gu

    (Broad Institute of MIT and Harvard)

  • Davide Cacchiarelli

    (Broad Institute of MIT and Harvard)

  • Alexander M. Tsankov

    (Broad Institute of MIT and Harvard
    Harvard Stem Cell Institute
    Harvard University)

  • Charles Epstein

    (Broad Institute of MIT and Harvard)

  • John L. Rinn

    (Broad Institute of MIT and Harvard
    Harvard Stem Cell Institute
    Harvard University)

  • Tarjei S. Mikkelsen

    (Broad Institute of MIT and Harvard)

  • Oliver Kohlbacher

    (Applied Bioinformatics, Center for Bioinformatics and Quantitative Biology Center, University of Tübingen, Tübingen 72076, Germany)

  • Andreas Gnirke

    (Broad Institute of MIT and Harvard)

  • Bradley E. Bernstein

    (Broad Institute of MIT and Harvard
    Massachusetts General Hospital and Harvard Medical School
    Center for Systems Biology and Center for Cancer Research, Massachusetts General Hospital)

  • Yechiel Elkabetz

    (Sackler School of Medicine, Tel Aviv University, Ramat Aviv 6997801, Israel)

  • Alexander Meissner

    (Broad Institute of MIT and Harvard
    Harvard Stem Cell Institute
    Harvard University)

Abstract

The integrative analysis of epigenetic footprints along consecutive stages of neural progenitors derived from human ES cells reveals regulatory mechanisms that orchestrate stage-specific differentiation.

Suggested Citation

  • Michael J. Ziller & Reuven Edri & Yakey Yaffe & Julie Donaghey & Ramona Pop & William Mallard & Robbyn Issner & Casey A. Gifford & Alon Goren & Jeffrey Xing & Hongcang Gu & Davide Cacchiarelli & Alexa, 2015. "Dissecting neural differentiation regulatory networks through epigenetic footprinting," Nature, Nature, vol. 518(7539), pages 355-359, February.
    • Handle: RePEc:nat:nature:v:518:y:2015:i:7539:d:10.1038_nature13990
    DOI: 10.1038/nature13990
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    Citations

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    Cited by:

    1. Pedro Madrigal & Siwei Deng & Yuliang Feng & Stefania Militi & Kim Jee Goh & Reshma Nibhani & Rodrigo Grandy & Anna Osnato & Daniel Ortmann & Stephanie Brown & Siim Pauklin, 2023. "Epigenetic and transcriptional regulations prime cell fate before division during human pluripotent stem cell differentiation," Nature Communications, Nature, vol. 14(1), pages 1-23, December.
    2. Anat Kreimer & Tal Ashuach & Fumitaka Inoue & Alex Khodaverdian & Chengyu Deng & Nir Yosef & Nadav Ahituv, 2022. "Massively parallel reporter perturbation assays uncover temporal regulatory architecture during neural differentiation," Nature Communications, Nature, vol. 13(1), pages 1-15, December.
    3. M S Vijayabaskar & Debbie K Goode & Nadine Obier & Monika Lichtinger & Amber M L Emmett & Fatin N Zainul Abidin & Nisar Shar & Rebecca Hannah & Salam A Assi & Michael Lie-A-Ling & Berthold Gottgens & , 2019. "Identification of gene specific cis-regulatory elements during differentiation of mouse embryonic stem cells: An integrative approach using high-throughput datasets," PLOS Computational Biology, Public Library of Science, vol. 15(11), pages 1-29, November.
    4. Norman L. Lehman & Nathalie Spassky & Müge Sak & Amy Webb & Cory T. Zumbar & Aisulu Usubalieva & Khaled J. Alkhateeb & Joseph P. McElroy & Kirsteen H. Maclean & Paolo Fadda & Tom Liu & Vineela Gangala, 2022. "Astroblastomas exhibit radial glia stem cell lineages and differential expression of imprinted and X-inactivation escape genes," Nature Communications, Nature, vol. 13(1), pages 1-20, December.

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