Publications de Julien Dorier | EPFL Graph Search

Application of a high-density microelectrode array assay using a 3D human iPSC-derived brain microphysiological system model for in vitro neurotoxicity screening of environmental compounds

Unraveling the associations between human exposure to environmental chemicals and potential neurotoxicity presents significant challenges. Evaluation of neurotoxicity potential using animal testing is resource-intensive (financial, labor, and animal use) a ...

Springer Science and Business Media LLC2025

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

Julien Dorier

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

Comparative assessment of cytometry by time-of-flight and full spectral flow cytometry based on a 33-color antibody panel

Nicolas Jean Philippe Guex, Julien Dorier, Miguel Garcia

Mass cytometry and full spectrum flow cytometry have recently emerged as new promising single cell proteomic analysis tools that can be exploited to decipher the extensive diversity of immune cell repertoires and their implication in human diseases. In thi ...

Elsevier2024

Chromosome-level organization of the regulatory genome in the Drosophila nervous system

Christian Iseli, Nicolas Jean Philippe Guex, Julien Dorier, Marion Leleu, Brian Donal McCabe, Rebecca Carolyn Smith

Previous studies have identified topologically associating domains (TADs) as basic units of genome organization. We present evidence of a previously unreported level of genome folding, where distant TAD pairs, megabases apart, interact to form meta-domains ...

2023

Essential role of Cp190 in physical and regulatory boundary formation

Christian Iseli, Nicolas Jean Philippe Guex, Julien Dorier

Boundaries in animal genomes delimit contact domains with enhanced internal contact frequencies and have debated functions in limiting regulatory cross-talk between domains and guiding enhancers to target promoters. Most mammalian boundaries form by stalli ...

2022

CTCF loss has limited effects on global genome architecture in Drosophila despite critical regulatory functions

Christian Iseli, Nicolas Jean Philippe Guex, Julien Dorier, Flavia Marzetta

Vertebrate genomes are partitioned into contact domains defined by enhanced internal contact frequency and formed by two principal mechanisms: compartmentalization of transcriptionally active and inactive domains, and stalling of chromosomal loop-extruding ...

Nature Research2021

A single-cell morpho-transcriptomic map of brassinosteroid action in the Arabidopsis root

Nicolas Jean Philippe Guex, Julien Dorier

2021

Cell-autonomous inflammation of BRCA1-deficient ovarian cancers drives both tumor-intrinsic immunoreactivity and immune resistance via STING

Christian Iseli, Julien Dorier, Mauro Delorenzi, Alizée Jéléna Grimm, Marco Mina, George Coukos, Alexandre Harari, Giovanni Ciriello

In this study, we investigate mechanisms leading to inflammation and immunoreactivity in ovarian tumors with homologous recombination deficiency (HRD). BRCA1 loss is found to lead to transcriptional reprogramming in tumor cells and cell-intrinsic inflammat ...

2021

Transcription-induced supercoiling explains formation of self-interacting chromatin domains in S-pombe

Yannis Burnier, Andrzej Stasiak, Julien Dorier, Fabrizio Benedetti

The question of how self-interacting chromatin domains in interphase chromosomes are structured and generated dominates current discussions on eukaryotic chromosomes. Numerical simulations using standard polymer models have been helpful in testing the vali ...

Oxford University Press (OUP)2017

Effects of physiological self-crowding of DNA on shape and biological properties of DNA molecules with various levels of supercoiling

Yannis Burnier, Giovanni Dietler, Andrzej Stasiak, Julien Dorier, Fabrizio Benedetti, Aleksandre Japaridze, Robert Sebastian Kwapich

DNA in bacterial chromosomes and bacterial plasmids is supercoiled. DNA supercoiling is essential for DNA replication and gene regulation. However, the density of supercoiling in vivo is circa twice smaller than in deproteinized DNA molecules isolated from ...

Oxford University Press2015

Models that include supercoiling of topological domains reproduce several known features of interphase chromosomes

Yannis Burnier, Andrzej Stasiak, Julien Dorier, Fabrizio Benedetti

Understanding the structure of interphase chromosomes is essential to elucidate regulatory mechanisms of gene expression. During recent years, high-throughput DNA sequencing expanded the power of chromosome conformation capture (3C) methods that provide in ...

Oxford University Press2014

Cooperative kinking at distant sites in mechanically stressed DNA

Andrzej Stasiak, Guillaume Witz, Julien Dorier, Davide Demurtas

In cells, DNA is routinely subjected to significant levels of bending and twisting. In some cases, such as under physiological levels of supercoiling, DNA can be so highly strained, that it transitions into non-canonical structural conformations that are c ...

Oxford University Press2011

Magnetization plateaux in an extended Shastry-Sutherland model

Frédéric Mila, Julien Dorier

We study an extended two-dimensional Shastry-Sutherland model in a magnetic field where besides the usual Heisenberg exchanges of the Shastry-Sutherland model two additional SU(2) invariant couplings are included. Perturbative continous unitary transformat ...

2009

Exotic phases of quantum frustrated magnets : magnetization plateaus, nematic order and supersolid phases

Julien Dorier

In this work, we study two examples of frustrated magnetic systems whose degrees of freedom are spins (or pseudo-spins) on two-dimensional lattices. The first part presents the results obtained for the quantum compass model on a square lattice. This model ...

EPFL2008

Supersolid phase induced by correlated hopping in spin-1/2 frustrated quantum magnets

Frédéric Mila, Julien Dorier

We show that correlated hopping of triplets, which is often the dominant source of kinetic energy in dimer-based frustrated quantum magnets, produces a remarkably strong tendency to form supersolid phases in a magnetic field. These phases are characterized ...

2008

Theory of Magnetization Plateaux in the Shastry-Sutherland Model

Frédéric Mila, Julien Dorier

Motivated by the remarkable properties of SrCu2(BO3)(2) in a magnetic field, we use perturbative continuous unitary transformations to determine the magnetization plateaux of the Shastry-Sutherland model, unveiling an unexpected sequence of plateaux progre ...

2008

Supersolid Phases of Hardcore Bosons on the Square Lattice: Correlated Hopping, Next-Nearest Neighbor Hopping and Frustration

Frédéric Mila, Julien Dorier

We discuss the appearance of supersolid phases for interacting hardcore bosons on the square lattice when, in addition to the standard nearest neighbor hopping and repulsion, correlated or next-nearest neighbor hopping is present. Having in mind dimer-base ...

2008

Solids and Supersolids of Three-Body Interacting Polar Molecules on an Optical Lattice

Julien Dorier

We study the physics of cold polar molecules loaded into an optical lattice in the regime of strong three-body interactions, as put forward recently by Buchler et al. [Nature Phys. 3, 726 (2007)]. To this end, quantum Monte Carlo simulations, exact diagona ...

2008

Single-particle versus pair condensation of hard-core bosons with correlated hopping

Frédéric Mila, Julien Dorier

We investigate the consequences of correlated hopping on the ground state properties of hard-core bosons on a square lattice as revealed by extensive exact diagonalizations and quantum Monte Carlo simulations. While for noninteracting hard-core bosons the ...

2006

Quantum compass model on the square lattice

Frédéric Mila, Julien Dorier

2005