A5044533871- Genomics and Chromatin Dynamics
- Fungal and yeast genetics research
- Ubiquitin and proteasome pathways
- RNA and protein synthesis mechanisms
- Chromosomal and Genetic Variations
- DNA Repair Mechanisms
- Plant Molecular Biology Research
- Gene Regulatory Network Analysis
- Advanced Biosensing Techniques and Applications
- Single-cell and spatial transcriptomics
- Microbial Metabolic Engineering and Bioproduction
- Evolution and Genetic Dynamics
- Advanced biosensing and bioanalysis techniques
- Bacterial Genetics and Biotechnology
- Monoclonal and Polyclonal Antibodies Research
Centre National de la Recherche Scientifique
2022-2024
CEA Paris-Saclay
2022-2024
Institut de Biologie Intégrative de la Cellule
2022-2024
Université Paris-Saclay
2022-2024
Commissariat à l'Énergie Atomique et aux Énergies Alternatives
2022-2024
Inserm
2024
Université Paris Cité
2024
Institut Pasteur
2024
In eukaryotic cells, the one-dimensional DNA molecules need to be tightly packaged into spatially constraining nucleus. Folding is achieved on its lowest level by wrapping around nucleosomes. Their arrangement regulates other nuclear processes, such as transcription and repair. Despite strong efforts study nucleosome positioning using Next Generation Sequencing (NGS) data, mechanism of their collective along gene body remains poorly understood. Here, we classify distributions protein-coding...
Abstract Changes in gene regulation largely contribute to differences cellular identities and phenotypes between species. Single-nucleus assays for transposase-accessible chromatin with sequencing (snATAC-seq) are an efficient strategy identify putative regulatory elements active a given tissue at single-cell resolution, have unprecedented potential provide new insight into evolutionary divergence of programs. However, no dedicated framework exists integrate compare snATAC-seq data across...
Chromatin organization is crucial for transcriptional regulation in eukaryotes. Mediator an essential and conserved co-activator thought to act concert with chromatin regulators. However, it remains largely unknown how their functions are coordinated. Here, we provide evidence the yeast Saccharomyces cerevisiae that establishes physical contact RSC (Remodels Structure of Chromatin), a remodeling complex nucleosome-depleted region (NDR) formation. We determine role Mediator-RSC interaction...
The great advances of sequencing technologies allow the in vivo measurement nuclear processes—such as DNA repair after UV exposure—over entire cell populations. However, data sets usually contain only a few samples over several hours, missing possibly important information between time points. We developed data-driven approach to analyse CPD kinetics Saccharomyces cerevisiae . In contrast other studies that consider signals an average behaviour, we understand them superposition from...
The development of next-generation sequencing (NGS) technologies paved the way for studying spatiotemporal coordination cellular processes along genome. However, data sets are commonly limited to a few time points, and missing information needs be interpolated. Most models assume that studied dynamics similar between individual cells, so homogeneous cell culture can represented by population-wide average. Here, we demonstrate this understanding inappropriate. We developed thought...
Abstract In eukaryotic cells, the one-dimensional DNA molecules need to be tightly packaged into spatially constraining nucleus. Folding is achieved on its lowest level by wrapping around nucleosomes. Their positioning regulates other nuclear processes, such as transcription and repair. Despite strong efforts study nucleosome phasing using Next Generation Sequencing (NGS) data, mechanism of their collective arrangement along gene body remains poorly understood. Here, we assess profiles...
Abstract Despite intensive research of DNA repair after UV in eukaryotes, a framework to quantitatively describe the dynamics vivo is still lacking. We developed new data-driven approach analyse CPD kinetics over time Saccharomyces cerevisiae . In contrast other studies that consider sequencing signals as an average behaviour, we introduce hidden axis representing independent cells where loci can transition from damaged repaired This permits application Kolmogorov-Johnson–Mehl–Avrami model...
Summary Chromatin organization is crucial for the transcriptional regulation in eukaryotes. Mediator an essential and conserved coactivator thought to act concert with chromatin regulators. However, it remains largely unknown how their functions are coordinated. Here, we provide evidence yeast Saccharomyces cerevisiae that establishes physical contact RSC (Remodels Structure of Chromatin), a remodeling complex nucleosome-depleted region (NDR) formation. We determined role Mediator-RSC...