Publications associées à Cooperation between bHLH transcription factors and histones for DNA access

Publications associées (29)

A boundary-defining protein facilitates megabase-scale regulatory chromosomal loop formation in Drosophila neurons

Regulatory elements, such as enhancers and silencers, control transcription by establishing physical proximity to target gene promoters. Neurons in flies and mammals exhibit long-range three-dimensional genome contacts, proposed to connect genes with dista ...

Cold Spring Harbor Laboratory2025

Tracing the (in)visible: Methodological advances in light-dosimetry to support integrative lighting research

Steffen Lutz Hartmeyer

Modern life, predominantly spent indoors, has profoundly altered natural patterns of light exposure, including the intensity, spectral composition, and timing of light that humans experience daily. These changes are particularly relevant given the growing ...

EPFL2025

Revealing chromatin-specific functions of histone deacylases

Beat Fierz, Carlos Moreno Yruela

Histone deacylases are erasers of Nε-acyl-lysine post-translational modifications and have been targeted for decades for the treatment of cancer, neurodegeneration and other disorders. Due to their relatively promiscuous activity on peptide substrates in v ...

2024

Context transcription factors establish cooperative environments and mediate enhancer communication

Bart Deplancke, Vincent Roland Julien Gardeux, Julie Marie Russeil, Guido Van Mierlo, Olga Pushkarev, Judith Franziska Kribelbauer

Many enhancers control gene expression by assembling regulatory factor clusters, also referred to as condensates. This process is vital for facilitating enhancer communication and establishing cellular identity. However, how DNA sequence and transcription ...

2024

The modulation of NREM sleep by corticotropin-releasing hormone through the thalamic reticular nucleus

Loredana Cumpana

The thalamic reticular nucleus (TRN) is an essential pacemaker within the thalamocortical circuitry that gives rise to non-rapid eye movement (NREM) sleep-related oscillations, such as sleep spindles. Spindle density fluctuations in the infraslow scale def ...

EPFL2024

cgNA+: A sequence-dependent coarse-grain model of double-stranded nucleic acids

Rahul Sharma

DNA mechanics plays a crucial role in many biological processes, including nucleosome positioning and protein-DNA interactions. It is believed that nature employs epigenetic modifications in DNA to further regulate gene expression. Moreover, double-strande ...

EPFL2023

Sex-dimorphic and age-dependent organization of 24-hour gene expression rhythms in humans

Felix Naef, Cédric Gobet, Lorenzo Talamanca

The circadian clock modulates human physiology. However, the organization of tissue-specific gene expression rhythms and how these depend on age and sex is not defined in humans. We combined data from the Genotype-Tissue Expression (GTEx) project with an a ...

American Association for the Advancement of Science2023

Context-dependent enhancer function revealed by targeted inter-TAD relocation

Denis Duboule, Lucille Delisle, Guillaume Andrey, Christopher Chase Bolt

Here the authors show that a strong enhancer sequence can be controlled by the chromatin environment provided by a topologically associated domain (TAD) located nearby. An enhancer relocated by homologous recombination takes all the hallmarks of its new ne ...

Nature Portfolio2022

The spectral sensitivity of human circadian phase resetting and melatonin suppression to light changes dynamically with light duration

Marilyne Andersen, María Lovísa Ámundadóttir

Human circadian, neuroendocrine, and neurobehavioral responses to light are mediated primarily by melanopsin-containing intrinsically-photosensitive retinal ganglion cells (ipRGCs) but they also receive input from visual photoreceptors. Relative photorecep ...

National Academy of Sciences2022

Human reproduction is regulated by retrotransposons derived from ancient Hominidae-specific viral infections

Didier Trono, Julien Paul André Pontis

The transcription factor network required for primordial germ cell (PGC) specification is known to diverge in mammals. Here the authors show that hominidae-specific transposable element (TE) LTR5Hs becomes transcriptionally active during PGC specification, ...

Nature Portfolio2022

Precision Surface Microtopography Regulates Cell Fate via Changes to Actomyosin Contractility and Nuclear Architecture

Jürgen Brugger

Cells are able to perceive complex mechanical cues from their microenvironment, which in turn influences their development. Although the understanding of these intricate mechanotransductive signals is evolving, the precise roles of substrate microtopograph ...

2021

A complex regulatory landscape involved in the development of mammalian external genitals

Denis Duboule, Lucille Delisle, Christopher Chase Bolt

Developmental genes are often controlled by large regulatory landscapes matching topologically associating domains (TADs). In various contexts, the associated chromatin backbone is modified by specific enhancer-enhancer and enhancer-promoter interactions. ...

2020

On the prediction of DNA-binding preferences of C2H2-ZF domains using structural models: application on human CTCF

Jaume Bonet Martinez

Cis2-His2 zinc finger (C2H2-ZF) proteins are the largest family of transcription factors in human and higher metazoans. To date, the DNA-binding preferences of many members of this family remain unknown. We have developed a computational method to predict ...

OXFORD UNIV PRESS2020

Astrocytic release of ATP through type 2 inositol 1,4,5‐trisphosphate receptor calcium signaling and social dominance behavior in mice

Maria del Carmen Sandi Perez, Fiona Hollis, Jocelin Grosse, Marie-Isabelle Guillot de Suduiraut, Eva Ramos Fernandez

Brain mitochondrial function is critical for numerous neuronal processes. We recently identified a link between brain energy and social dominance, where higher levels of mitochondrial function resulted in increased social competitive ability. The underlyin ...

2020

A Tale of Two Tumors: Unraveling the Complexities of Epigenetic Dysregulation in Cancer

Maria Christine Donaldson

Epigenetics plays an important role in cancer development and progression. Cancer cells hijack the epigenome by modifying the histone protein units responsible for packaging DNA, or by modifying the DNA itself, resulting in changes to chromatin topology an ...

EPFL2019

The Mouse Microbiome Is Required for Sex-Specific Diurnal Rhythms of Gene Expression and Metabolism

Felix Naef, Cédric Gobet, Jake Yeung, Frédéric Bruno Martin Gachon, Benjamin Dieter Weger

The circadian clock and associated feeding rhythms have a profound impact on metabolism and the gut microbiome. To what extent microbiota reciprocally affect daily rhythms of physiology in the host remains elusive. Here, we analyzed transcriptome and metab ...

Cell Press2019

Low-dimensional dynamics of two coupled biological oscillators

Felix Naef, Eric Paquet, Colas Noé Droin

The circadian clock and the cell cycle are two biological oscillatory processes that coexist within individual cells. These two oscillators were found to interact, which can lead to their synchronization. Here, we develop a method to identify a low-dimensi ...

NATURE PUBLISHING GROUP2019

Gene control with a "twist": Exploring the dynamic chromatin landscape Gene control with a "twist": Exploring the dynamic chromatin landscape

Beat Fierz

SPRINGER2019

Casein kinase 2 mediated phosphorylation of Spt6 modulates histone dynamics and regulates spurious transcription

Eric Paquet

CK2 is an essential protein kinase implicated in various cellular processes. In this study, we address a potential role of this kinase in chromatin modulations associated with transcription. We found that CK2 depletion from yeast cells leads to replication ...

OXFORD UNIV PRESS2018

Trypanosoma brucei UMSBP2 is a single-stranded telomeric DNA binding protein essential for chromosome end protection

Galina Glousker

Universal minicircle sequence binding proteins (UMSBPs) are CCHC-type zinc-finger proteins that bind a single-stranded G-rich sequence, UMS, conserved at the replication origins of the mitochondrial (kinetoplast) DNA of trypanosomatids. Here, we report tha ...

OXFORD UNIV PRESS2018