Ligne de temps

Christophe Zimmer
Responsable de Structure
10 avr. 2024
publication

Deep learning-based detection of murine congenital heart defects from µCT scans

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22 nov. 2023
event

Joint Microbiology and Computational Biology departments seminar: Yves Brun (University of Montreal, Canada) “Antimicrobial discovery by artificial intelligence-assisted high throughput microscopy” ; Wednesday 13 December @10.30am ; Agnes Ullman Amphitheater.

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01 juil. 2023
publication

Deep learning in image-based phenotypic drug discovery.

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30 juin 2023
software

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

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24 mai 2023
event

Symposium – Artificial Intelligence in Biology and Health

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11 avr. 2023
publication

Polymer simulations guide the detection and quantification of chromatin loop extrusion by imaging.

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08 mars 2023
publication

A specific molecular signature in SARS-CoV-2-infected kidney biopsies.

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21 oct. 2022
publication

ShareLoc – an open platform for sharing localization microscopy data.

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25 août 2022
event

INCEPTION 2022 meeting: Integrative Biology, Social and Data Sciences to understand the Emergence of Diseases in Populations and in Individuals

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23 juin 2022
event

Conférence-Débat “Cerveaux et Intelligence Artificielle”

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01 juin 2022
publication

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

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01 avr. 2022
publication

Sensitive visualization of SARS-CoV-2 RNA with CoronaFISH.

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25 févr. 2022
publication

Molecular organization and mechanics of single vimentin filaments revealed by super-resolution imaging.

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01 janv. 2022
publication

Versatile CRISPR-Based Method for Site-Specific Insertion of Repeat Arrays to Visualize Chromatin Loci in Living Cells.

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06 oct. 2021
event

2021 Computational Biology Department Days

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05 oct. 2021
publication

Listeriolysin S: A bacteriocin from Listeria monocytogenes that induces membrane permeabilization in a contact-dependent manner.

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11 juin 2021
news

An imaging and modeling approach to characterize the structure of DNA in human cells

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03 juin 2021
publication

Single-molecule localization microscopy

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11 mai 2021
publication

Super-resolution visualization and modeling of human chromosomal regions reveals cohesin-dependent loop structures.

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04 janv. 2021
publication

Clustering and reverse transcription of HIV-1 genomes in nuclear niches of macrophages.

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28 sept. 2020
publication

A Dual Protein-mRNA Localization Screen Reveals Compartmentalized Translation and Widespread Co-translational RNA Targeting.

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21 juil. 2020
software

instaGRAAL: chromosome-level quality scaffolding of genomes using a proximity ligation-based scaffolder

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18 juin 2020
publication

instaGRAAL: chromosome-level quality scaffolding of genomes using a proximity ligation-based scaffolder.

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17 juin 2020
project

CORONAFISH

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10 mai 2020
software

Imjoy – open access platform for deep learning methods

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01 déc. 2019
publication

ImJoy: an open-source computational platform for the deep learning era

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05 mars 2019
publication

How the Genome Folds: The Biophysics of Four-Dimensional Chromatin Organization

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01 déc. 2018
publication

A computational framework to study sub-cellular RNA localization

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07 nov. 2018
event

The 26th Pasteur-Weizmann symposium

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07 sept. 2018
software

ZOLA-3D Zernike Optimized Localization approach

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19 juin 2018
publication

ZOLA-3D allows flexible 3D localization microscopy over an adjustable axial range

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08 juin 2018
publication

Chromatin mobility upon DNA damage: state of the art and remaining questions

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29 mai 2018
publication

Visualization of Arenavirus RNA Species in Individual Cells by Single-Molecule Fluorescence Hybridization Suggests a Model of Cyclical Infection and Clearance during Persistence

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23 avr. 2018
software

ANNA-PALM

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16 avr. 2018
publication

Deep learning massively accelerates super-resolution localization microscopy

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01 janv. 2018
publication

From dynamic chromatin architecture to DNA damage repair and back

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01 déc. 2017
publication

GPI-anchored proteins are confined in subdiffraction clusters at the apical surface of polarized epithelial cells

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15 sept. 2017
publication

Functional organization of cytoplasmic inclusion bodies in cells infected by respiratory syncytial virus.

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10 juil. 2017
publication

Chromatin stiffening underlies enhanced locus mobility after DNA damage in budding yeast

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01 juil. 2017
publication

Abstracting the dynamics of biological pathways using information theory: a case study of apoptosis pathway

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12 juin 2017
publication

Faster and less phototoxic 3D fluorescence microscopy using a versatile compressed sensing scheme

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03 mai 2017
publication

Inferring the physical properties of yeast chromatin through Bayesian analysis of whole nucleus simulations

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01 févr. 2017
publication

Long-term tracking of budding yeast cells in brightfield microscopy: CellStar and the Evaluation Platform.

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28 oct. 2016
program_project

INCEPTION – INstitut Convergences pour l’étude de l’Émergence des Pathologies au Travers des Individus et des populatiONs

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05 sept. 2016
publication

smiFISH and FISH-quant – a flexible single RNA detection approach with super-resolution capability

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27 juil. 2016
publication

A single-molecule view of transcription reveals convoys of RNA polymerases and multi-scale bursting

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01 juil. 2016
project

Deep learning for biology

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01 févr. 2016
publication

What Population Reveals about Individual Cell Identity: Single-Cell Parameter Estimation of Models of Gene Expression in Yeast.

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13 janv. 2016
publication

Evidence for a dual role of actin in regulating chromosome organization and dynamics in yeast

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05 janv. 2016
publication

Evidence for actin dual role in regulating chromosome organization and dynamics in yeast

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11 sept. 2015
software

GRAAL: genome assembly from chromosome contact frequencies

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11 sept. 2015
software

FISH-quant: automatically counting transcripts in RNA-FISH images

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11 sept. 2015
software

QuickPALM: Reconstruction of PALM/STORM super-resolution microscopy images

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11 sept. 2015
software

Nucloc: mapping gene territories in the yeast nucleus

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06 juin 2015
project

Pointillist nanoscopy

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06 juin 2015
project

Nuclear architecture and function

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11 mai 2015
team

Imagerie et modélisation

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06 mars 2015
publication

Chromatin organization at the nuclear pore favours HIV replication.

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01 janv. 2015
publication

In silico control of biomolecular processes.

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17 déc. 2014
publication

High-quality genome (re)assembly using chromosomal contact data.

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02 déc. 2014
team

Analyse d’Images Biologiques

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01 déc. 2014
publication

A platform for rapid prototyping of synthetic gene networks in mammalian cells.

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26 juin 2014
publication

Transcription factors modulate c-Fos transcriptional bursts

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07 avr. 2014
publication

Filling annotation gaps in yeast genomes using genome-wide contact maps.

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01 janv. 2014
publication

FlAsH-PALM: super-resolution pointillist imaging with FlAsH-tetracysteine labeling.

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01 janv. 2014
publication

Computational models of large-scale genome architecture

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07 oct. 2013
publication

Regulated vesicle fusion generates signaling nanoterritories that control T cell activation at the immunological synapse

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22 août 2013
publication

How to build a yeast nucleus

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22 juil. 2013
publication

Systematic characterization of the conformation and dynamics of budding yeast chromosome XII

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01 juin 2013
publication

Species-specific impact of the autophagy machinery on Chikungunya virus infection.

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05 mai 2013
publication

Effect of nuclear architecture on the efficiency of double-strand break repair

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01 avr. 2013
publication

FISH-quant: automatic counting of transcripts in 3D FISH images

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15 mars 2013
publication

Composition and abstraction of logical regulatory modules: application to multicellular systems.

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01 janv. 2013
publication

STL-based analysis of TRAIL-induced apoptosis challenges the notion of type I/type II cell line classification.

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01 nov. 2012
publication

From microbes to numbers: extracting meaningful quantities from images

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31 oct. 2012
publication

Single-molecule localization super-resolution microscopy: deeper and faster

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30 août 2012
publication

A predictive computational model of the dynamic 3D interphase yeast nucleus

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23 avr. 2012
publication

Hierarchies of host factor dynamics at the entry site of Shigella flexneri during host cell invasion

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01 mars 2011
publication

Principles of chromosomal organization: lessons from yeast

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17 janv. 2011
publication

Super-resolution dynamic imaging of dendritic spines using a low-affinity photoconvertible actin probe

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01 mai 2010
publication

QuickPALM: 3D real-time photoactivation nanoscopy image processing in ImageJ

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13 janv. 2010
publication

Chromosome arm length and nuclear constraints determine the dynamic relationship of yeast subtelomeres

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02 nov. 2008
publication

High-resolution statistical mapping reveals gene territories in live yeast

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17 mai 2008
publication

Improving single particle localization with an empirically calibrated Gaussian kernel

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01 juin 2006
publication

SAGA interacting factors confine sub-diffusion of transcribed genes to the nuclear envelope

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01 avr. 2006
publication

Richardson-Lucy algorithm with total variation regularization for 3D confocal microscope deconvolution

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01 févr. 2006
publication

Human tumor necrosis factor is a chemoattractant for the parasite Entamoeba histolytica

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01 nov. 2005
publication

Coupled parametric active contours

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01 sept. 2005
publication

Segmenting and tracking fluorescent cells in dynamic 3-D microscopy with coupled active surfaces

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01 janv. 2005
publication

Myosin II and the Gal-GalNAc lectin play a crucial role in tissue invasion by Entamoeba histolytica

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01 juil. 2004
publication

Imaging movement of malaria parasites during transmission by Anopheles mosquitoes

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01 janv. 2003
publication

EhPAK, a member of the p21-activated kinase family, is involved in the control of Entamoeba histolytica migration and phagocytosis

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01 nov. 2002
publication

Membrane-cytoskeleton interactions during the formation of the immunological synapse and subsequent T-cell activation

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01 oct. 2002
publication

Segmentation and tracking of migrating cells in videomicroscopy with parametric active contours: a tool for cell-based drug testing

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