Deciphering Cis-Regulatory Principles of Transcriptional regulation: Combining large-scale genetics and genomics to dissect functional principles of genome regulation during embryonic development

Project Information

DeCRyPT

Grant agreement ID: 787611

DOI

10.3030/787611

Project closed

EC signature date 30 May 2018

Start date 1 January 2019

End date 30 June 2024

Funded under

• EXCELLENT SCIENCE - European Research Council (ERC)

Total cost

€ 2 499 675,00

EU contribution

€ 2 499 675,00

Coordinated by

EUROPEAN MOLECULAR BIOLOGY LABORATORY
Germany

CORDIS provides links to public deliverables and publications of HORIZON projects.

Links to deliverables and publications from FP7 projects, as well as links to some specific result types such as dataset and software, are dynamically retrieved from OpenAIRE .

Publications

Peer reviewed articles (14)

CTCF, BEAF-32, and CP190 are not required for the establishment of TADs in early Drosophila embryos but have locus-specific roles

Author(s): Cavalheiro GR, Girardot C, Viales RR, Pollex T, Cao TBN, Lacour P, Feng S, Rabinowitz A, Furlong EEM
Published in: Science Advances, Issue 9(5):eade1085, 2023, ISSN 2375-2548
Publisher: American Association for the Advancement of Science
DOI: 10.1126/sciadv.ade1085

Simultaneous cellular and molecular phenotyping of embryonic mutants using single-cell regulatory trajectories

Author(s): Secchia S, Forneris M, Heinen T, Stegle O, Furlong EEM
Published in: Developmental Cell, Issue 57/4, 2022, ISSN 1534-5807
Publisher: Cell Press
DOI: 10.1016/j.devcel.2022.01.016

Enhancer–promoter interactions become more instructive in the transition from cell-fate specification to tissue differentiation

Author(s): Tim Pollex, Adam Rabinowitz, Maria Cristina Gambetta, Raquel Marco-Ferreres, Rebecca R. Viales, Aleksander Jankowski, Christoph Schaub, Eileen E. M. Furlong
Published in: Nature Genetics, Issue 56, 2024, Page(s) 686-696, ISSN 1061-4036
Publisher: Nature Publishing Group
DOI: 10.1038/s41588-024-01678-x

Lineage-Resolved Enhancer and Promoter Usage during a Time Course of Embryogenesis

Author(s): Reddington JP, Garfield DA, Sigalova OM, Karabacak Calviello A, Marco-Ferreres R, Girardot C, Viales RR, Degner JF, Ohler U, Furlong EEM
Published in: Developmental Cell, Issue 09 Nov 2020, 55(5), 2020, Page(s) 648-664.e9, ISSN 1534-5807
Publisher: Cell Press
DOI: 10.1016/j.devcel.2020.10.009

Highly rearranged chromosomes reveal uncoupling between genome topology and gene expression

Author(s): Yad Ghavi-Helm, Aleksander Jankowski, Sascha Meiers, Rebecca R. Viales, Jan O. Korbel, Eileen E. M. Furlong
Published in: Nature Genetics, Issue 51/8, 2019, Page(s) 1272-1282, ISSN 1061-4036
Publisher: Nature Publishing Group
DOI: 10.1038/s41588-019-0462-3

Chromatin gene-gene loops support the cross-regulation of genes with related function

Author(s): Tim Pollex, Raquel Marco-Ferreres, Lucia Ciglar, Yad Ghavi-Helm, Adam Rabinowitz, Rebecca Rodriguez Viales, Christoph Schaub, Aleksander Jankowski, Charles Girardot, Eileen E.M. Furlong
Published in: Molecular Cell, Issue 84, 2024, Page(s) 822-838.e8, ISSN 1097-2765
Publisher: Cell Press
DOI: 10.1016/j.molcel.2023.12.023

Regulating specificity in enhancer-promoter communication

Author(s): Galouzis CC, Furlong EEM
Published in: Cell Biology, Issue 75/102065, 2022, ISSN 0955-0674
Publisher: Elsevier BV
DOI: 10.1016/j.ceb.2022.01.010

Cis -acting variation is common across regulatory layers but is often buffered during embryonic development

Author(s): Swann Floc'hlay, Emily S. Wong, Bingqing Zhao, Rebecca R. Viales, Morgane Thomas-Chollier, Denis Thieffry, David A. Garfield, Eileen E.M. Furlong
Published in: Genome Research, Issue 31/2, 2021, Page(s) 211-224, ISSN 1088-9051
Publisher: Cold Spring Harbor Laboratory Press
DOI: 10.1101/gr.266338.120

Enhancers have more cofactor specificity than we think: A potential new way to classify enhancers based on their functional cofactor requirements

Author(s): Pijuan-Sala B, Furlong EEM
Published in: Molecular Cell, Issue 82/16, 2022, ISSN 1097-2765
Publisher: Cell Press
DOI: 10.1016/j.molcel.2022.07.015

Extremely rapid and reversible optogenetic perturbation of nuclear proteins in living embryos

Author(s): Kögler AC, Kherdjemil Y, Bender K,Rabinowitz A, Marco-Ferreres R, Furlong EEM
Published in: Developmental Cell, Issue 06 Aug 2021, 56(16), 2021, Page(s) 2348-2363.e8, ISSN 1534-5807
Publisher: Cell Press
DOI: 10.1016/j.devcel.2021.07.011

The continuum of Drosophila embryonic development at single-cell resolution

Author(s): Calderon D, Blecher-Gonen R, Huang X, Secchia S, Kentro J, Daza RM, Martin B, Dulja A, Schaub C, Trapnell C, Larschan E, O'Connor-Giles KM, Furlong EEM, Shendure J
Published in: Science, Issue 6606/377, 2022, ISSN 0036-8075
Publisher: American Association for the Advancement of Science
DOI: 10.1126/science.abn5800

Chromatin topology, condensates and gene regulation: shifting paradigms or just a phase?

Author(s): Mustafa Mir, Wendy Bickmore, Eileen E. M. Furlong, Geeta Narlikar
Published in: Development, Issue 146/19, 2019, Page(s) dev182766, ISSN 0950-1991
Publisher: The Company of Biologists Ltd.
DOI: 10.1242/dev.182766

scDALI: modeling allelic heterogeneity in single cells reveals context-specific genetic regulation

Author(s): Heinen T, Secchia S, Reddington JP, Zhao B, Furlong EEM, Stegle O
Published in: Genome Biology, Issue 23/1, 2022, ISSN 1474-760X
Publisher: BMC part of Springer Nature
DOI: 10.1186/s13059-021-02593-8

The role of transcription in shaping the spatial organization of the genome

Author(s): Bas van Steensel, Eileen E. M. Furlong
Published in: Nature Reviews Molecular Cell Biology, 2019, ISSN 1471-0072
Publisher: Nature Publishing Group
DOI: 10.1038/s41580-019-0114-6

Other (2)

The road ahead in genetics and genomics

Author(s): McGuire AL, Gabriel S, Tishkoff SA, Wonkam A, Chakravarti A, Furlong EEM, Treutlein B, Meissner A, Chang HY, López-Bigas N, Segal E, Kim JS
Published in: Nature reviews. Genetics, Issue 24 Aug 2020, 21(10), 2020, Page(s) 581-596, ISSN 1471-0064
Publisher: Springer Nature Limited
DOI: 10.1038/s41576-020-0272-6

Contextualising transcription factor binding during embryogenesis using natural sequence variation

Author(s): Olga M. Sigalova, Mattia Forneris, Frosina Stojanovska, Bingqing Zhao, Rebecca R. Viales, Adam Rabinowitz, Fayrouz Hamal, Benoît Ballester, Judith B Zaugg, Eileen E.M. Furlong
Published in: BioRxiv, Issue 10.24.619975, 2024
Publisher: Cold Spring Harbor Laboratory
DOI: 10.1101/2024.10.24.619975