Jean-Yves Tinévez

Mastodon is a software platform for analyzing large-scale lineage-tracing microscopy datasets, enabling manual and automated cell tracking and lineage analysis in complex 3D geometries.

This study shows that Neisseria meningitidis uses ancreopodia to transmit mechanical forces from the apical surface to the basal extracellular matrix, altering host-cell mechanics.

This study uses single-cell metabolomics to show that Legionella pneumophila infection induces metabolic reprogramming in human macrophages, with bacterial effectors promoting glycolytic shifts.

This study identifies rapid cytoskeletal remodeling in choanoflagellates during a flagellate-to-amoeboid switch, driven by microvillar retraction and actin cortex formation.

EpiCure is a tool for curating epithelial segmentation errors in 2D movies, improving accuracy and efficiency in single-cell dynamics analysis.

This study shows bidirectional mitochondrial transfer via tunneling nanotubes between glioblastoma cells and astrocytes, both in vitro and in vivo, and highlights their role in tumor microenvironment interactions.

This study shows that glial cell adhesion molecules regulate neural stem cell proliferation by modulating mechanical forces and nuclear integrity in Drosophila.

The paper introduces an automated framework for optimizing bacterial tracking pipelines using TrackMate 8, demonstrating its effectiveness on two use cases.

LiLiTTool enables real-time tracking of multiple regions of interest in growing embryos using deep learning and sensor fusion, improving long-term imaging reliability.

The paper identifies stress-responsive Mycobacterium tuberculosis subpopulations that influence macrophage polarization and shows targeting GroEL2 can limit inflammation.

The paper develops a semi-automated workflow using FIB-SEM data and nnU-Net to analyze liver sinusoid fenestration in mice, confirming BMP9's role in LSEC differentiation.

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

The paper tracks metabolic dynamics in single human macrophages infected with Legionella pneumophila to predict bacterial replication with 83% accuracy using machine learning.

This study identifies mechanoporation via the Type Three Secretion System as a mechanism by which Shigella flexneri breaches vacuolar membranes to access the cytosol.

This study shows that CDT toxin from Clostridioides difficile induces biofilm-like microcolonies, increasing colonization and persistence in intestinal models and infected mice.

The paper investigates pattern formation in the Drosophila eye using experiments and modeling, revealing a new relay model for propagating oscillations and crystal-like order through pulsatile Notch signaling.

The paper identifies distinct molecular and functional properties of extraocular muscle stem cells compared to limb muscle stem cells using scRNA-seq and other methods.

CellTracksColab is a platform for compiling, analyzing, and exploring tracking data from biological movies, enabling holistic dataset analysis and identification of behavioral patterns.

The paper links apical size and deltaA expression to neural stem cell activation and division modes in zebrafish, showing their independence from Notch signaling.

The paper introduces Zellige, a software tool for extracting multiple surfaces from 3D microscopy images, demonstrating its performance on synthetic and biological samples.

Rewritten Fiji plugin TrackMate now uses StarDist, ilastik, Weka, MorphoLibJ or imported label images as detectors, stores 2D object contours, and tracks shape and intensity over time.

The paper introduces LocalZProjector and DeProj, tools for accurate 2D projection and morphometric analysis of 3D microscopy images, showing they handle complex data and correct projection distortions.

The paper shows neural stem cells use local feedback mechanisms with delays to coordinate their division and maintain homeostasis in the adult brain.

The paper uses multi-view light-sheet imaging and a new tracking tool to reconstruct cell lineages and behaviors during crustacean limb development, revealing how cell proliferation and division orientation drive limb outgrowth.