Édouard Bertrand

Cell heterogeneity contributes to the variable response of HIV-1 to latency reversing agents

The paper investigates HIV-1 transcription variability using a dual-copy MS2-tagging system and mathematical analysis, finding that cellular heterogeneity influences the response to latency-reversing agents.

A large-scale analysis of the R2TP chaperone network reveals its contribution to the assembly of INO80, SRCAP and TIP60

The paper identifies RPAP3 and PIH1D1 as R2TP subunits and shows their role in assembling INO80, SRCAP, and TIP60 complexes through physical interactions and functional validation.

The R2T(P) complex orchestrates the SHQ1 driven early steps of box H/ACA snoRNP maturation

This paper identifies a novel role for the R2T complex in early box H/ACA snoRNP maturation by characterizing interactions between SHQ1, RuvBL1:RuvBL2, and other factors.

Co-translational determination of quaternary structures in chaperone factories

The paper identifies co-translational interactions between R2TP and client proteins, revealing a mechanism called co-translational chaperone channeling that facilitates early assembly of protein complexes.

A Deep Learning approach for time-consistent cell cycle phase prediction from microscopy data

The paper predicts cell cycle phases from microscopy data using a variational auto-encoder with auxiliary tasks, and provides a new annotated dataset.

Single-Molecule DNA Footprinting and Transcription Imaging Reveal the Molecular Mechanisms of Promoter Dynamics

The paper uses SMF and live imaging to study promoter dynamics, showing Tat influences nucleosome removal and polymerase activity.

Universal dynamics of cohesin-mediated loop extrusion

The paper tracks TAD anchors in human cells to quantify cohesin-mediated loop extrusion dynamics and shows consistent extrusion rates across diverse genomic regions.

Chemical inhibition of Exon Junction Complex assembly impairs mRNA localization and neural stem cells ciliogenesis

This study shows that inhibiting EJC assembly with EJC-i disrupts mRNA localization and neural stem cell ciliogenesis by affecting multiple post-transcriptional processes.

G-quadruplexes are promoter elements controlling nucleosome exclusion and RNA polymerase II pausing

This study identifies G-quadruplexes as promoter elements that exclude nucleosomes and facilitate RNA polymerase II pausing.

Biophysical Modeling Uncovers Transcription Factor and Nucleosome Binding on Single DNA Molecules

The paper introduces HiddenFoot, a probabilistic model to infer TF, nucleosome, and Pol II occupancy from single-molecule data, revealing binding dynamics and heterogeneity in mouse, Drosophila, and human cells.

R2TP-like Quaternary Chaperones: a comprehensive overview to understand the dynamic R2SP complex

This study investigates the 3D structure and function of the human R2SP complex using biochemical and structural methods, revealing similarities to the canonical R2TP complex and differences in ATPase activity and adaptor binding.

Cell cycle-dependent mRNA localization in P-bodies

This study examines how mRNA localization to P-bodies changes during the cell cycle, revealing that mRNA dynamics in P-bodies are not solely linked to translation status but are regulated by RNA features and RBPs.

Boosting the toolbox for live imaging of translation

The paper improves fluorescent tools for live imaging of translation in Drosophila embryos and mammalian cells, introducing new methods like ALFA-array and MCP-tdStaygold.

Co-translational sorting enables a single mRNA to generate distinct polysomes with different localizations and protein fates

The paper shows that co-translational interactions sort β-catenin mRNAs into distinct polysome populations with different localizations and protein fates.

Long non-coding RNA Neat1 and paraspeckle components are translational regulators in hypoxia.

The paper identifies Neat1 and paraspeckle components as translational regulators that facilitate IRES-dependent translation during hypoxia in mouse cardiomyocytes.

Structure of the RPAP3:TRBP interaction reveals an involvement of the HSP90/R2TP chaperone complex in dsRNA pathways

The paper identifies the RPAP3-TRBP interaction and shows the HSP90/R2TP chaperone complex's role in dsRNA pathways by binding TRBP and affecting AGO and Dicer function.

The R2TP chaperone assembles cellular machineries in intestinal CBC stem cells and progenitors

This study investigates the role of the R2TP chaperone in intestinal stem and progenitor cells, showing its critical function in proliferation and its association with poor colorectal cancer prognosis.

Stochastic pausing at latent HIV-1 promoters generates transcriptional bursting

The paper uses single molecule imaging to study HIV-1 promoter pausing and finds that stochastic pausing leads to transcriptional bursting in latent cells.

Quantitative imaging of transcription in living Drosophila embryos reveals the impact of core promoter motifs on promoter state dynamics

The paper uses live imaging and computational methods to study how promoter motifs affect transcriptional bursting in Drosophila embryos, revealing distinct dynamics for TATA and INR motifs.

FISH-quant v2: a scalable and modular analysis tool for smFISH image analysis

FISH-quant v2 is a modular tool for analyzing smFISH images, enabling detection, segmentation, quantification, and visualization of RNA localization at the single-cell level.

Live-cell imaging reveals the spatiotemporal organization of endogenous RNA polymerase II phosphorylation at a single gene

The paper uses live-cell imaging to study RNA polymerase II phosphorylation dynamics at a single gene, revealing spatial and temporal organization of phosphorylation clusters during transcription.

First responders shape a prompt and sharp NF-κB-mediated transcriptional response to TNF-α

The paper characterizes the transcriptional response to TNF-α using single-cell analysis, showing heterogeneous gene expression with prompt and sharp population-level dynamics driven by 'first responders'.