Fides Zenk (0000-0002-0324-0902)

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EPFL - École Polytechnique Fédérale de Lausanne: Lausanne, CH

2023 to 2025 (School of Life Sciences, Brain Mind Institute, Prof. Zenk Group)

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ORCID Integration at EPFL

Chromatin landscape at cis-regulatory elements orchestrates cell fate decisions in early embryogenesis

Nature Communications

2025-03-27 | Journal article

DOI: 10.1038/s41467-025-57719-4

Part of ISSN: 2041-1723

Contributors: Francesco Cardamone; Annamaria Piva; Eva Loeser; Bastian Eichenberger; Mari Carmen Romero-Mulero; Fides Zenk; Emily J. Shields; Cabezas-Wallscheid; Roberto Bonasio; Guido Tiana et al.

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Phospho-seq: integrated, multi-modal profiling of intracellular protein dynamics in single cells

Nature Communications

2025-02-04 | Journal article

DOI: 10.1038/s41467-025-56590-7

Contributors: John D. Blair; Austin Hartman; Fides Zenk; Philipp Wahle; Giovanna Brancati; Carol Dalgarno; Barbara Treutlein; Rahul Satija

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Building the epigenetic fortress with PRC2.2

Nature Cell Biology

2025-01 | Journal article

DOI: 10.1038/s41556-024-01551-3

Contributors: Fides Zenk

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Dissecting the epigenetic regulation of human brain organoid development in single cells

Nature Neuroscience

2024-07 | Journal article

DOI: 10.1038/s41593-024-01653-z

Part of ISSN: 1097-6256

Part of ISSN: 1546-1726

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Fides Zenk

Single-cell epigenomic reconstruction of developmental trajectories from pluripotency in human neural organoid systems

Nature Neuroscience

2024-07 | Journal article

DOI: 10.1038/s41593-024-01652-0

Contributors: Fides Zenk; Jonas Simon Fleck; Sophie Martina Johanna Jansen; Bijan Kashanian; Benedikt Eisinger; Małgorzata Santel; Jean-Samuel Dupré; J. Gray Camp; Barbara Treutlein

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Inheritance of H3K9 methylation regulates genome architecture in Drosophila early embryos

The EMBO Journal

2024-06-03 | Journal article

DOI: 10.1038/s44318-024-00127-z

Part of ISSN: 1460-2075

Contributors: Dr. Nazerke Atinbayeva; Iris Anne Valent; Fides Zenk; Eva Loeser; Michael Rauer; Shwetha Herur; Piergiuseppe Quarato; Giorgos Pyrowolakis; Alejandro Gomez-Auli; Gerhard Mittler et al.

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Fides Zenk

Analyzing the Genome-Wide Distribution of Histone Marks by CUT&Tag in Drosophila Embryos

Methods in Molecular Biology

2023 | Book chapter

DOI: 10.1007/978-1-0716-3143-0_1

Part of ISBN: 9781071631423

Part of ISBN: 9781071631430

Part of ISSN: 1064-3745

Part of ISSN: 1940-6029

Contributors: Fides Zenk; Francesco Cardamone; Dafne Andrea Ibarra Morales; Nazerke Atinbayeva; Yinxiu Zhan; Nicola Iovino

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Chromosome Conformation Capture Followed by Genome-Wide Sequencing (Hi-C) in Drosophila Embryos

Methods in Molecular Biology

2023 | Book chapter

DOI: 10.1007/978-1-0716-3143-0_4

Part of ISBN: 9781071631423

Part of ISBN: 9781071631430

Part of ISSN: 1064-3745

Part of ISSN: 1940-6029

Contributors: Francesco Cardamone; Yinxiu Zhan; Nicola Iovino; Fides Zenk

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Single-cell epigenomic reconstruction of developmental trajectories in human neural organoid systems from pluripotency

2023-09-13 | Preprint

DOI: 10.1101/2023.09.12.557341

Contributors: Fides Zenk; Jonas Simon Fleck; Sophie Martina Johanna Jansen; Bijan Kashanian; Benedikt Eisinger; Małgorzata Santel; Jean Dupre; J. Gray Camp; Barbara Treutlein

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Morphodynamics of human early brain organoid development

2023-08-22 | Preprint

DOI: 10.1101/2023.08.21.553827

Contributors: Akanksha Jain; Gilles Gut; Fátima Sanchis-Calleja; Ryoko Okamoto; Simon Streib; Zhisong He; Fides Zenk; Malgorzata Santel; Makiko Seimiya; René Holtackers et al.

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CBP and Gcn5 drive zygotic genome activation independently of their catalytic activity

Science Advances

2023-04-21 | Journal article | Author

DOI: 10.1126/sciadv.adf2687

Part of ISSN: 2375-2548

Contributors: filippo ciabrelli; Leily Rabbani; Francesco Cardamone; Fides Zenk; Eva Löser; Melanie Anna Schächtle; Marina Mazina; Vincent Loubiere; Nicola Iovino

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Phospho-seq: Integrated, multi-modal profiling of intracellular protein dynamics in single cells

2023-03-28 | Preprint | Author

DOI: 10.1101/2023.03.27.534442

Contributors: John D. Blair; Austin Hartman; Fides Zenk; Carol Dalgarno; Barbara Treutlein; Rahul Satija

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Inferring and perturbing cell fate regulomes in human brain organoids

Nature

2022-10-05 | Journal article

DOI: 10.1038/s41586-022-05279-8

Part of ISSN: 0028-0836

Part of ISSN: 1476-4687

Contributors: Jonas Simon Fleck; Sophie Martina Johanna Jansen; Damian Wollny; Fides Zenk; Makiko Seimiya; Akanksha Jain; Ryoko Okamoto; Malgorzata Santel; Zhisong He; J. Gray Camp et al.

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Fides Zenk

Histone variant H2A.Z regulates zygotic genome activation

Nature Communications

2021-12-01 | Journal article

DOI: 10.1038/s41467-021-27125-7

Part of ISSN: 2041-1723

Contributors: Dafne Ibarra-Morales; Michael Rauer; Piergiuseppe Quarato; Leily Rabbani; Fides Zenk; Mariana Schulte-Sasse; Francesco Cardamone; Alejandro Gomez-Auli; Germano Cecere; Nicola Iovino

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Fides Zenk

Transovarial transmission of a core virome in the Chagas disease vector Rhodnius prolixus

PLOS Pathogens

2021-08-18 | Journal article

DOI: 10.1371/journal.ppat.1009780

Part of ISSN: 1553-7374

Contributors: Tarcísio Brito; Vitor Coelho; Maira Arruda Cardoso; Ingrid Alexandre de Abreu Brito; Berni M. A.; Fides Lea Zenk; Nicola Iovino; Attilio Pane

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Fides Zenk

HP1 drives de novo 3D genome reorganization in early Drosophila embryos

Nature

2021-05-13 | Journal article | Author

DOI: 10.1038/s41586-021-03460-z

Part of ISSN: 0028-0836

Part of ISSN: 1476-4687

Contributors: Fides Zenk; yinxiu zhan; Pavel Kos; Eva Löser; Nazerke Atinbayeva; Melanie Schächtle; Guido Tiana; Luca Giorgetti; Nicola Iovino

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Intergenerationally Maintained Histone H4 Lysine 16 Acetylation Is Instructive for Future Gene Activation

Cell

2020-07 | Journal article

DOI: 10.1016/j.cell.2020.05.026

Part of ISSN: 0092-8674

Contributors: Maria Samata; Anastasios Alexiadis; Gautier Richard; Plamen Georgiev; Johannes Nuebler; Tanvi Kulkarni; Gina Renschler; M. Felicia Basilicata; Fides Lea Zenk; Maria Shvedunova et al.

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Fides Zenk

Development of 15 nuclear microsatellite markers in<i>Deuterocohnia</i>(Pitcairnioideae; Bromeliaceae) using 454 pyrosequencing

Applications in Plant Sciences

2018-04 | Journal article

DOI: 10.1002/aps3.1147

Part of ISSN: 2168-0450

Contributors: Fides Lea Zenk; Cynthia Firmer; Tina Wöhrmann; Luciana Vicente da Silva; Kurt Weising; Bruno Huettel; Gecele Paggi

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Fides Zenk

KDM4 Inhibition Targets Breast Cancer Stem–like Cells

Cancer Research

2017-11-01 | Journal article

DOI: 10.1158/0008-5472.can-17-1754

Part of ISSN: 0008-5472

Part of ISSN: 1538-7445

Contributors: Eric Metzger; Stella S. Stepputtis; Juliane Strietz; Bogdan-Tiberius Preca; Sylvia Urban; Dominica Willmann; Anita Allen; Fides Zenk; Nicola Iovino; Peter Bronsert et al.

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Fides Zenk

Germ line–inherited H3K27me3 restricts enhancer function during maternal-to-zygotic transition

Science

2017-07-14 | Journal article | Author

DOI: 10.1126/science.aam5339

Part of ISSN: 0036-8075

Part of ISSN: 1095-9203

Contributors: Fides Zenk; Eva Loeser; Rosaria Schiavo; Fabian Kilpert; Ozren Bogdanovic; Nicola Iovino

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Cellular analysis of the action of epigenetic drugs and probes

Epigenetics

2017-05-04 | Journal article

DOI: 10.1080/15592294.2016.1274472

Part of ISSN: 1559-2294

Part of ISSN: 1559-2308

Contributors: Mirjam Hau; Fides Zenk; A. Ganesan; Nicola Iovino; Manfred Jung

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Fides Zenk

The protein domains of the Dictyostelium microprocessor that are required for correct subcellular localization and for microRNA maturation

RNA Biology

2016-10-02 | Journal article

DOI: 10.1080/15476286.2016.1212153

Part of ISSN: 1547-6286

Part of ISSN: 1555-8584

Contributors: Janis Kruse; Doreen Meier; Fides Zenk; Maren Rehders; Wolfgang Nellen; Christian Hammann

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Fides Zenk

Analysis of the Microprocessor in Dictyostelium: The Role of RbdB, a dsRNA Binding Protein

PLOS Genetics

2016-06-06 | Journal article

DOI: 10.1371/journal.pgen.1006057

Part of ISSN: 1553-7404

Contributors: Doreen Meier; Janis Kruse; Jann Buttlar; Michael Friedrich; Fides Zenk; Benjamin Boesler; Konrad U. Förstner; Christian Hammann; Wolfgang Nellen

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Fides Zenk

Review activity for Nature cell biology (1)

Review activity for Neuron. (1)

How many people are using ORCID?

Fides Zenk

https://orcid.org/0000-0002-0324-0902

Personal information

Activities

Employment (1)

EPFL - École Polytechnique Fédérale de Lausanne: Lausanne, CH

Works (23)

Chromatin landscape at cis-regulatory elements orchestrates cell fate decisions in early embryogenesis

Phospho-seq: integrated, multi-modal profiling of intracellular protein dynamics in single cells

Building the epigenetic fortress with PRC2.2

Dissecting the epigenetic regulation of human brain organoid development in single cells

Single-cell epigenomic reconstruction of developmental trajectories from pluripotency in human neural organoid systems

Inheritance of H3K9 methylation regulates genome architecture in Drosophila early embryos

Analyzing the Genome-Wide Distribution of Histone Marks by CUT&Tag in Drosophila Embryos

Chromosome Conformation Capture Followed by Genome-Wide Sequencing (Hi-C) in Drosophila Embryos

Single-cell epigenomic reconstruction of developmental trajectories in human neural organoid systems from pluripotency

Morphodynamics of human early brain organoid development

CBP and Gcn5 drive zygotic genome activation independently of their catalytic activity

Phospho-seq: Integrated, multi-modal profiling of intracellular protein dynamics in single cells

Inferring and perturbing cell fate regulomes in human brain organoids

Histone variant H2A.Z regulates zygotic genome activation

Transovarial transmission of a core virome in the Chagas disease vector Rhodnius prolixus

HP1 drives de novo 3D genome reorganization in early Drosophila embryos

Intergenerationally Maintained Histone H4 Lysine 16 Acetylation Is Instructive for Future Gene Activation

Development of 15 nuclear microsatellite markers in<i>Deuterocohnia</i>(Pitcairnioideae; Bromeliaceae) using 454 pyrosequencing

KDM4 Inhibition Targets Breast Cancer Stem–like Cells

Germ line–inherited H3K27me3 restricts enhancer function during maternal-to-zygotic transition

Cellular analysis of the action of epigenetic drugs and probes

The protein domains of the Dictyostelium microprocessor that are required for correct subcellular localization and for microRNA maturation

Analysis of the Microprocessor in Dictyostelium: The Role of RbdB, a dsRNA Binding Protein

Peer review (2 reviews for 2 publications/grants)