Publications by Damien Lionel Nicolas

The circadian oscillator analysed at the single-transcript level

Felix Naef, Jake Yeung, Damien Lionel Nicolas

The circadian clock is an endogenous and self-sustained oscillator that anticipates daily environmental cycles. While rhythmic gene expression of circadian genes is well-described in populations of cells, the single-cell mRNA dynamics of multiple core cloc ...

2021

Functional and Computational Genomics Reveal Unprecedented Flexibility in Stage-Specific Toxoplasma Metabolism

Vassily Hatzimanikatis, Anush Chiappino-Pepe, Matteo Lunghi, Damien Lionel Nicolas, Aarti Krishnan, Dominique Soldati-Favre

To survive and proliferate in diverse host environments with varying nutrient availability, the obligate intracellular parasite Toxoplasma gondii reprograms its metabolism. We have generated and curated a genome-scale metabolic model (iTgo) for the fast-re ...

CELL PRESS2020

Clock-dependent chromatin topology modulates circadian transcription and behavior

Felix Naef, Cédric Gobet, Kyle Gustafson, Frédéric Bruno Martin Gachon, Jake Yeung, Daniel Alain Dominique Marie Mauvoisin, Damien Lionel Nicolas, Jérôme Mermet, Celine Jouffe, Clémence Yumie Syloun Hurni

Cold Spring Harbor Laboratory Press2018

Modulation of transcriptional burst frequency by histone acetylation

Felix Naef, David Michael Suter, Benjamin Zoller, Damien Lionel Nicolas

National Academy of Sciences2018

Rhythmic modulation of transcriptional burst frequency in circadian gene promoters

Damien Lionel Nicolas

Isogenic cells sharing a common environment present a large degree of heterogeneity in gene expression, and stochasticity inherent to transcription substantially participates in this cell-to-cell variability. Notably, a majority of mammalian genes are tran ...

EPFL2017

What shapes eukaryotic transcriptional bursting?

Felix Naef, Damien Lionel Nicolas, Nicholas Edward Phillips

Isogenic cells in a common environment present a large degree of heterogeneity in gene expression. Part of this variability is attributed to transcriptional bursting: the stochastic activation and inactivation of promoters that leads to the discontinuous p ...

Royal Society of Chemistry2017

CAST: An automated segmentation and tracking tool for the analysis of transcriptional kinetics from single-cell time-lapse recordings

Felix Naef, Benjamin Zoller, Damien Lionel Nicolas, Simon Blanchoud, Onur Tidin

Fluorescence and bioluminescence time-lapse imaging allows to investigate a vast range of cellular processes at single-cell or even subcellular resolution. In particular, time-lapse imaging can provide uniquely detailed information on the fine kinetics of ...

Academic Press Inc Elsevier Science2015