Publications related to CLOCK | EPFL Graph Search

The circadian clock time tunes axonal regeneration

Nerve injuries cause permanent neurological disability due to limited axonal regeneration. Injury-dependent and-independent mechanisms have provided important insight into neuronal regeneration, however, common denominators underpinning regeneration remain ...

Cell Press2023

Statistical physics of periodic biological processes

Lorenzo Talamanca

Earth rotation around its axis imposes a 24-hour rhythmicity to all life on the planet. Rather than passively responding to these periodic changes, nature has given us an internal timekeeper, the circadian clock, to anticipate to our advantage the fluctuat ...

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

Comment on "Circadian rhythms in the absence of the clock gene Bmal1"

Felix Naef, Cédric Gobet

Ray et al. (Reports, 14 February 2020, p. 800) recently claimed temperature-compensated, free-running mRNA oscillations in Bmal1(-/-) liver slices and skin fibroblasts. We reanalyzed these data and found far fewer reproducible mRNA oscillations in this gen ...

American Association for the Advancement of Science2021

Theory of time delayed genetic oscillations with external noisy regulation

Andrew Charles Oates, Laurel Ann Rohde, Jose Negrete Jr

Video Abstract Video Abstract: Theory of time delayed genetic oscillations with external noisy regulation We present a general theory of noisy genetic oscillators with externally regulated production rate and multiplicative noise. The observables that char ...

2021

Modeling synchronization in globally coupled oscillatory systems using model order reduction

Jan Sickmann Hesthaven, Niccolo' Discacciati

We construct reduced order models for two classes of globally coupled multi-component oscillatory systems, selected as prototype models that exhibit synchronization. These are the Kuramoto model, considered both in its original formulation and with a suita ...

American Institute of Physics2021

Human thermal perception and time of day: A review

Giorgia Chinazzo

The circadian clock regulates diurnal variations in autonomic thermoregulatory processes such as core body temperature in humans. Thus, we might expect that similar daily fluctuations also characterize human thermal perception, the ultimate role of which i ...

2021

Space-time logic of liver gene expression at sub-lobular scale

Felix Naef, Clémence Yumie Syloun Hurni, Colas Noé Droin

The mammalian liver is a central hub for systemic metabolic homeostasis. Liver tissue is spatially structured, with hepatocytes operating in repeating lobules, and sub-lobule zones performing distinct functions. The liver is also subject to extensive tempo ...

NATURE RESEARCH2021

Circadian dynamics of RNA localisation in the mammalian liver

Clémence Yumie Syloun Hurni

Gene expression in eukaryotes is a complex multi-step process. It starts in the nucleus with transcription, the synthesis of a mRNA copy from a DNA template. While in the nucleus, the RNA transcript is subject to multiple co- and post-transcriptional modif ...

EPFL2021

Alertness in work environments : on the role of indoor daylight exposure

Victoria Eugenia Soto Magán

Light enables to see the world around us, while playing a key role in our biological functioning. During the last decades, light has become an important research topic for chronobiologists and neuroscientists, and their findings are increasingly interwoven ...

EPFL2021

Rocker oscillator time bases

Simon Nessim Henein, Ilan Vardi

Since the invention of the pendulum clock by Christiaan Huygens in 1657, precision timekeepers have been regulated by oscillators. Although the pendulum is not an isochronous oscillator, its introduction as a time basis for clock regulation led to a signif ...

2021

Multi-omics reveals abundant mitochondrial genomic and circadian expression variation in the Drosophila Genetic Reference Panel

Maria Litovchenko

Modern biology rapidly generates a wealth of data,which can only be analysed computationally.Despite the variety of available data types,most of them aim to provide an answer to one question: how does genotypic diversity translates into phenotypes? This qu ...

EPFL2020

In pancreatic islets from type 2 diabetes patients, the dampened circadian oscillators lead to reduced insulin and glucagon exocytosis

Daniel Sage

Circadian clocks operative in pancreatic islets participate in the regulation of insulin secretion in humans and, if compromised, in the development of type 2 diabetes (T2D) in rodents. Here we demonstrate that human islet alpha- and beta-cells that bear a ...

National Academy of Sciences2020

Circadian rhythms and proteomics: It's all about posttranslational modifications!

Daniel Alain Dominique Marie Mauvoisin

The circadian clock is a molecular endogenous timekeeping system and allows organisms to adjust their physiology and behavior to the geophysical time. Organized hierarchically, the master clock in the suprachiasmatic nuclei, coordinates peripheral clocks, ...

WILEY2019

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

Tissue-specific circadian transcriptional regulation

Jake Yeung

Circadian rhythms in physiology and behavior evolved to resonate with daily cycles in the external environment. In mammals, organs orchestrate temporal physiology over the 24-hour day, which requires extensive gene expression rhythms targeted to the right ...

EPFL2019

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

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

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

Circadian Regulation of Cochlear Sensitivity to Noise by Circulating Glucocorticoids

Frédéric Bruno Martin Gachon, Benjamin Dieter Weger

The cochlea possesses a robust circadian clock machinery that regulates auditory function. How the cochlear clock is influenced by the circadian system remains unknown. Here, we show that cochlear rhythms are system driven and require local Bmal1 as well a ...

2019

At the Intersection of Microbiota and Circadian Clock: Are Sexual Dimorphism and Growth Hormones the Missing Link to Pathology? Circadian Clock and Microbiota: Potential Egffect on Growth Hormone and Sexual Development

Frédéric Bruno Martin Gachon, Benjamin Dieter Weger

Reciprocal interactions between the host circadian clock and the microbiota are evidenced by recent literature. Interestingly, dysregulation of either the circadian clock or microbiota is associated with common human pathologies such as obesity, type 2 dia ...

WILEY2019

Cross-regulatory circuits linking inflammation, high-fat diet, and the circadian clock

Felix Naef, Frédéric Bruno Martin Gachon, Jake Yeung

Mammalian physiology resonates with the daily changes in the external environment, allowing processes such as rest-activity cycles, metabolism, and body temperature to synchronize with daily changes in the surroundings. Studies have identified the molecula ...

COLD SPRING HARBOR LAB PRESS, PUBLICATIONS DEPT2018