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Genome-scale functional characterization of Drosophila developmental enhancers in vivo

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  • Evgeny Z. Kvon

    (Research Institute of Molecular Pathology (IMP), Vienna Biocenter VBC, Dr Bohr-Gasse 7, 1030 Vienna, Austria
    Present addresses: Howard Hughes Medical Institute, Janelia Farm Research Campus, Ashburn, Virginia 20147, USA (B.J.D.); Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA (E.Z.K.).)

  • Tomas Kazmar

    (Research Institute of Molecular Pathology (IMP), Vienna Biocenter VBC, Dr Bohr-Gasse 7, 1030 Vienna, Austria)

  • Gerald Stampfel

    (Research Institute of Molecular Pathology (IMP), Vienna Biocenter VBC, Dr Bohr-Gasse 7, 1030 Vienna, Austria)

  • J. Omar Yáñez-Cuna

    (Research Institute of Molecular Pathology (IMP), Vienna Biocenter VBC, Dr Bohr-Gasse 7, 1030 Vienna, Austria)

  • Michaela Pagani

    (Research Institute of Molecular Pathology (IMP), Vienna Biocenter VBC, Dr Bohr-Gasse 7, 1030 Vienna, Austria)

  • Katharina Schernhuber

    (Research Institute of Molecular Pathology (IMP), Vienna Biocenter VBC, Dr Bohr-Gasse 7, 1030 Vienna, Austria)

  • Barry J. Dickson

    (Research Institute of Molecular Pathology (IMP), Vienna Biocenter VBC, Dr Bohr-Gasse 7, 1030 Vienna, Austria
    Present addresses: Howard Hughes Medical Institute, Janelia Farm Research Campus, Ashburn, Virginia 20147, USA (B.J.D.); Genomics Division, Lawrence Berkeley National Laboratory, Berkeley, California 94720, USA (E.Z.K.).)

  • Alexander Stark

    (Research Institute of Molecular Pathology (IMP), Vienna Biocenter VBC, Dr Bohr-Gasse 7, 1030 Vienna, Austria)

Abstract

Systematically assaying the activity of 7,705 candidate enhancers during Drosophila embryogenesis shows that nearly half are active in the embryo and display dynamic spatial patterns during development; enhancer activity is matched to expression patterns of putative target genes and predictive cis-regulatory motifs are identified.

Suggested Citation

  • Evgeny Z. Kvon & Tomas Kazmar & Gerald Stampfel & J. Omar Yáñez-Cuna & Michaela Pagani & Katharina Schernhuber & Barry J. Dickson & Alexander Stark, 2014. "Genome-scale functional characterization of Drosophila developmental enhancers in vivo," Nature, Nature, vol. 512(7512), pages 91-95, August.
    • Handle: RePEc:nat:nature:v:512:y:2014:i:7512:d:10.1038_nature13395
    DOI: 10.1038/nature13395
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    Cited by:

    1. Dafne Ibarra-Morales & Michael Rauer & Piergiuseppe Quarato & Leily Rabbani & Fides Zenk & Mariana Schulte-Sasse & Francesco Cardamone & Alejandro Gomez-Auli & Germano Cecere & Nicola Iovino, 2021. "Histone variant H2A.Z regulates zygotic genome activation," Nature Communications, Nature, vol. 12(1), pages 1-14, December.
    2. Siqian Feng & Chaitanya Rastogi & Ryan Loker & William J. Glassford & H. Tomas Rube & Harmen J. Bussemaker & Richard S. Mann, 2022. "Transcription factor paralogs orchestrate alternative gene regulatory networks by context-dependent cooperation with multiple cofactors," Nature Communications, Nature, vol. 13(1), pages 1-19, December.
    3. Timothy L. H. Wong & Clifford B. Talbot & Gero Miesenböck, 2023. "Transient photocurrents in a subthreshold evidence accumulator accelerate perceptual decisions," Nature Communications, Nature, vol. 14(1), pages 1-9, December.
    4. Kota Hamamoto & Yusuke Umemura & Shiho Makino & Takashi Fukaya, 2023. "Dynamic interplay between non-coding enhancer transcription and gene activity in development," Nature Communications, Nature, vol. 14(1), pages 1-17, December.
    5. Maëlle Bellec & Jérémy Dufourt & George Hunt & Hélène Lenden-Hasse & Antonio Trullo & Amal Zine El Aabidine & Marie Lamarque & Marissa M. Gaskill & Heloïse Faure-Gautron & Mattias Mannervik & Melissa , 2022. "The control of transcriptional memory by stable mitotic bookmarking," Nature Communications, Nature, vol. 13(1), pages 1-14, December.
    6. Vincent Loubiere & Bernardo P. Almeida & Michaela Pagani & Alexander Stark, 2024. "Developmental and housekeeping transcriptional programs display distinct modes of enhancer-enhancer cooperativity in Drosophila," Nature Communications, Nature, vol. 15(1), pages 1-11, December.

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