Publications by Beat Fierz | EPFL Graph Search

Related publications (58)

Single-molecule dynamics and genome-wide transcriptomics reveal that NF-kB (p65)-DNA binding times can be decoupled from transcriptional activation

Suliana Manley, Aleksandr Benke, Beat Fierz, Andrea Callegari, David Michael Suter, Christian Sieben

Transcription factors (TFs) regulate gene expression in both prokaryotes and eukaryotes by recognizing and binding to specific DNA promoter sequences. In higher eukaryotes, it remains unclear how the duration of TF binding to DNA relates to downstream tran ...

2019

A bi-terminal protein ligation strategy to probe chromatin structure during DNA damage

Beat Fierz, Sinan Kilic, Carolin Christine Lechner, Iuliia Boichenko

The cellular response to DNA damage results in a signaling cascade that primes chromatin for repair. Combinatorial post-translational modifications (PTMs) play a key role in this process by altering the physical properties of chromatin and recruiting downs ...

2018

De novo design of protein interactions with learned surface fingerprints

Henning Paul-Julius Stahlberg, Didier Trono, Priscilla Turelli, Charlène Mireille Raymonde Raclot, Sandrine Madeleine Suzanne Georgeon, Beat Fierz, Aaron Simone Petruzzella, Anthony Marchand, Bruno Emanuel Ferreira De Sousa Correia, Elisa Oricchio, Zander Harteveld, Pablo Gainza Cirauqui, Freyr Sverrisson, Andreas Scheck, Sarah Wehrle, Stéphane Rosset, Alexandra Krina Van Hall-Beauvais, Alexandra Teslenko, Jane Marsden, Michael Bronstein, Casper Alexander Goverde, Stephen Michael Buckley, Dongchun Ni, Martin Pacesa

Physical interactions between proteins are essential for most biological processes governing life. However, the molecular determinants of such interactions have been challenging to understand, even as genomic, proteomic and structural data increase. This k ...

2023

Single-molecule kinetic analysis of HP1-chromatin binding reveals a dynamic network of histone modification and DNA interactions

Vassily Hatzimanikatis, Louise Catherine Bryan, Georg Fantner, Pascal Damian Odermatt, Oliver Hantschel, Sandrine Madeleine Suzanne Georgeon, Beat Fierz, Sinan Kilic, Carolin Christine Lechner, Andreas Linus Bachmann, Daniel Robert Weilandt

Chromatin recruitment of effector proteins involved in gene regulation depends on multivalent interaction with histone post-translational modifications (PTMs) and structural features of the chromatin fiber. Due to the complex interactions involved, it is c ...

Oxford University Press (OUP)2017

"Doubly Orthogonal" Labeling of Peptides and Proteins

Jérôme Waser, Nora Guidotti, Beat Fierz, Romain Gaëtan Tessier, Raphaël Michel Henri Simonet-Davin, Javier De Ceballos Cerrajeria

Herein, we report a cysteine bioconjugation methodology for the introduction of hypervalent iodine compounds onto biomolecules. Ethynylbenziodoxolones (EBXs) engage thiols in small organic molecules and cysteine-containing peptides and proteins in a fast a ...

2019

Observing protein interaction dynamics to chemically defined chromatin fibers by colocalization single-molecule fluorescence microscopy

Maxime Nicolas Mivelaz, Beat Fierz

In eukaryotic cells, the genome is packaged into chromatin and exists in different states, ranging from open euchromatic regions to highly condensed heterochromatic regions. Chromatin states are highly dynamic and are organized by an interplay of histone p ...

2020

Release of linker histone from the nucleosome driven by polyelectrolyte competition with a disordered protein

Beat Fierz, Sinan Kilic

Highly charged intrinsically disordered proteins are essential regulators of chromatin structure and transcriptional activity. Here we identify a surprising mechanism of molecular competition that relies on the pronounced dynamical disorder present in thes ...

NATURE PORTFOLIO2022

Peptide‐Carbazolyl Cyanobenzene Conjugates: Enabling Biomolecule Functionalization via Photoredox and Energy Transfer Catalysis

Anne-Sophie Chauvin, Jérôme Waser, Beat Fierz, Xingyu Liu, Wei Cai

Since their discovery in 2012, carbazolyl (iso)phthalonitrile derivatives (Cz(I)PN) have found significant applications as photocatalysts in organic chemistry. Herein, we introduce two efficient methods for incorporating carbazolyl cyanobenzenes into vario ...

Wiley2025

Multivalency governs HP1α association dynamics with the silent chromatin state

Louise Catherine Bryan, Beat Fierz, Sinan Kilic, Andreas Linus Bachmann

Multivalent interactions between effector proteins and histone post-translational modifications are an elementary mechanism of dynamic chromatin signalling. Here we elucidate the mechanism how heterochromatin protein 1α (HP1α), a multivalent effector, is e ...

Nature Research2015

Multiplexed Single-Molecule Experiments Reveal Nucleosome Invasion Dynamics of the Cas9 Genome Editor

Louise Catherine Bryan, Beat Fierz, Kristina Makasheva

Single-molecule measurements provide detailed mechanistic insights into molecular processes, for example in genome regulation where DNA access is controlled by nucleosomes and the chromatin machinery. However, real-time single-molecule observations of nucl ...

AMER CHEMICAL SOC2021

Dynamic Chromatin Regulation from a Single Molecule Perspective

Beat Fierz

Chromatin regulatory processes, like all biological reactions, are dynamic and stochastic in nature but can give rise to stable and inheritable changes in gene expression patterns. A molecular understanding of those processes is key for fundamental biologi ...

American Chemical Society2016

CENP-A and CENP-B collaborate to create an open centromeric chromatin state

Beat Fierz, Harsh Nagpal, Wei Cai

Centromeres are epigenetically defined via the presence of the histone H3 variant CENP-A. Contacting CENP-A nucleosomes, the constitutive centromere associated network (CCAN) and the kinetochore assemble, connecting the centromere to spindle microtubules d ...

Nature Portfolio2023

Applying Peptide and Protein Synthesis to Study Post-translational Modifications in Epigenetics and Beyond

Beat Fierz

Epigenetics research focuses on the study of heritable gene regulatory mechanisms that do not involve changes of the DNA sequence. Such mechanisms include post-translational modifications of histone proteins that organize the genome in the nucleus into a n ...

2021

SUV39 SET domains mediate crosstalk of heterochromatic histone marks

Nora Guidotti, Beat Fierz, Sinan Kilic

Y The SUV39 class of methyltransferase enzymes deposits histone H3 lysine 9 di- and trimethylation (H3K9me2/3), the hallmark of constitutive heterochromatin. How these enzymes are regulated to mark specific genomic regions as heterochromatic is poorly unde ...

eLIFE SCIENCES PUBL LTD2021

Chemical and biophysical methods to explore dynamic mechanisms of chromatin silencing

Beat Fierz, Iuliia Boichenko

Chromatin, the nucleoprotein complex organizing the genome, is central in regulating gene expression and genome organization. Chromatin conformational dynamics, controlled by histone post-translational modifications (PTM) and effector proteins, play a key ...

2019

Tubulin engineering by semi-synthesis reveals that polyglutamylation directs detyrosination

Luc Reymond, Pierre Gönczy, Nora Guidotti, Beat Fierz, Ninad Dilip Agashe, Georgios Hatzopoulos, Timothy Matthias Reichart, Eduard Hubert Theodoor Marius Ebberink, Fabian Zacharias Schneider, Cédric Pourroy, Po-Han Chang

Microtubules, a critical component of the cytoskeleton, carry post-translational modifications (PTMs) that are important for the regulation of key cellular processes. Long-lived microtubules, in neurons particularly, exhibit both detyrosination of a-tubuli ...

NATURE PORTFOLIO2023

Structural mechanism of cGAS inhibition by the nucleosome

Rudolf Hovius, Simone Cavadini, Beat Fierz, Andrea Ablasser, Sélène-Véronique Glück, Baptiste Claude André Guey, Alexiane Clara Decout, Kristina Makasheva, Pauline Ambre Melenec

The DNA sensor cGAS initiates innate immune responses following microbial infection, cellular stress, and cancer1. Upon activation by double-stranded DNA, cytosolic cGAS produces 2’3’ cyclic GMP-AMP and triggers inflammatory cytokine and type I interferon ...

2020

Biophysics of Chromatin Dynamics

Beat Fierz

Nucleosomes and chromatin control eukaryotic genome accessibility and thereby regulate DNA processes, including transcription, replication, and repair. Conformational dynamics within the nucleosome and chromatin structure play a key role in this regulatory ...

ANNUAL REVIEWS2019

Single-molecule analysis reveals the mechanism of chromatin ubiquitylation by variant PRC1 complexes

Beat Fierz, Alexandra Teslenko

Chromatin regulation relies on “writer” enzymes that add posttranslational modifications to histone proteins. Variant polycomb repressive complex 1 (PRC1) exists as several subtypes, which are “writers” of ubiquitylation on histone H2A K118 and K119, cruci ...

American Association for the Advancement of Science (AAAS)2025

Decoding Chromatin Ubiquitylation: A Chemical Biology Perspective

Beat Fierz, Pauline Franz

Since Strahl and Allis proposed the "language of covalent histone modifications", a host of experimental studies have shed light on the different facets of chromatin regulation by epigenetic mechanisms. Initially proposed as a concept for controlling gene ...

Academic Press Ltd- Elsevier Science Ltd2024