Publications related to Stochastic phase oscillators and circadian bioluminescence recordings

Related publications (31)

Statistical physics of periodic biological processes

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

The circadian clock time tunes axonal regeneration

Thomas Haynes Hutson

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

Uncovering personalized glucose responses and circadian rhythms from multiple wearable biosensors with Bayesian dynamical modeling

Felix Naef, Nicholas Edward Phillips

Wearable biosensors and smartphone applications can measure physiological variables over multiple days in free-living conditions. We measure food and drink ingestion, glucose dynamics, physical activity, heart rate (HR), and heart rate variability (HRV) in ...

CELL PRESS2023

Mice with humanized livers reveal the role of hepatocyte clocks in rhythmic behavior

Benjamin Dieter Weger, Cédric Gobet, Frédéric Bruno Martin Gachon

The synchronization of circadian clock depends on a central pacemaker located in the suprachiasmatic nuclei. However, the potential feedback of peripheral signals on the central clock remains poorly characterized. To explore whether peripheral organ circad ...

AMER ASSOC ADVANCEMENT SCIENCE2023

Reduced order models for coupled systems

Niccolo' Discacciati

Efficient numerical simulations of coupled multi-component systems can be particularly challenging. This is mostly due to the complexity of their solutions, as mutual interactions may cause emergent behaviors, including synchronization and instabilities. V ...

EPFL2023

Membrane potential dynamics of excitatory and inhibitory neurons in mouse barrel cortex during active whisker sensing

Carl Petersen, Sylvain Crochet, Aurélie Pala, Taro Kiritani, Célia Roxane Gasselin

Neocortical neurons can increasingly be divided into well-defined classes, but their activity patterns during quantified behavior remain to be fully determined. Here, we obtained membrane potential recordings from various classes of excitatory and inhibito ...

PUBLIC LIBRARY SCIENCE2023

A simulation tool for building and lighting design considering ipRGC-influenced light responses

Marilyne Andersen, Clotilde Marie A Pierson

The ipRGCs in the human eye mediate several effects on people, such as alertness and circadian rhythms. The spectral, temporal and spatial characteristics of light influence the magnitude of these effects. To facilitate the anticipation of the ipRGC-influe ...

2022

Optimized office lighting advances melatonin phase and peripheral heat loss prior bedtime

Jean-Louis Scartezzini, Mirjam Münch, Marta Benedetti, Lenka Maierova

Improving indoor lighting conditions at the workplace has the potential to support proper circadian entrainment of hormonal rhythms, sleep, and well-being. We tested the effects of optimized dynamic daylight and electric lighting on circadian phase of mela ...

Nature Research2022

Preliminary evidence that daily light exposure enhances the antibody response to influenza vaccination in patients with dementia

Jean-Louis Scartezzini

Enhancing lighting conditions in institutions for individuals with dementia improves their sleep, circadian rhythms and well-being. Here, we report first findings that exposure to brighter light during daytime may support the immune response to the annual ...

ELSEVIER2022

Type 2 diabetes disrupts circadian orchestration of lipid metabolism and membrane fluidity in human pancreatic islets

Jonathan Paz Montoya

Recent evidence suggests that circadian clocks ensure temporal orchestration of lipid homeostasis and play a role in pathophysiology of metabolic diseases in humans, including type 2 diabetes (T2D). Nevertheless, circadian regulation of lipid metabolism in ...

PUBLIC LIBRARY SCIENCE2022

New Insights Into the Pivotal Role of CREB-Regulated Transcription Coactivator 1 in Depression and Comorbid Obesity

Antoine Timothée Cherix

Depression and obesity are major public health concerns, and there is mounting evidence that they share etiopathophysiological mechanisms. The neurobiological pathways involved in both mood and energy balance regulation are complex, multifactorial and stil ...

FRONTIERS MEDIA SA2022

Comprehensive analysis of the circadian nuclear and cytoplasmic transcriptome in mouse liver

Felix Naef, Cédric Gobet, Benjamin Dieter Weger, Clémence Yumie Syloun Hurni

In eukaryotes, RNA is synthesised in the nucleus, spliced, and exported to the cytoplasm where it is translated and finally degraded. Any of these steps could be subject to temporal regulation during the circadian cycle, resulting in daily fluctuations of ...

PUBLIC LIBRARY SCIENCE2022

DASS: Combining Dynamic & Static Scheduling in High-Level Synthesis

Paolo Ienne, Lana Josipovic

A central task in high-level synthesis is scheduling: the allocation of operations to clock cycles. The classic approach to scheduling is static, in which each operation is mapped to a clock cycle at compile-time, but recent years have seen the emergence o ...

IEEE-INST ELECTRICAL ELECTRONICS ENGINEERS INC2022

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

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

Felix Naef, Colas Noé Droin, Clémence Yumie Syloun Hurni

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

Human thermal perception and time of day: A review

Jeffrey Turner Hubbard, 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

Theory of time delayed genetic oscillations with external noisy regulation

Andrew Charles Oates, Jose Negrete Jr, Laurel Ann Rohde

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

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

Oscillating and stable genome topologies underlie hepatic physiological rhythms during the circadian cycle

Felix Naef, Jake Yeung, Jérôme Mermet

The circadian clock drives extensive temporal gene expression programs controlling daily changes in behavior and physiology. In mouse liver, transcription factors dynamics, chromatin modifications, and RNA Polymerase II (PolII) activity oscillate throughou ...

2021