To fully understand living systems we need (i) experimental techniques to describe them as accurately and comprehensively as possible, and (ii) computational models able to predict their evolution from a given state and in response to external signals. The Imaging and Modeling Unit of Institut Pasteur, develops computational and experimental approaches to characterize and quantitatively predict selected cellular processes. Our current projects concentrate on : (i) investigating the dynamic spatial architecture of the genome and its functional consequences, and (ii) developing high resolution or high throughput imaging techniques, and applying them to study genome architecture and the cell biology of pathogens, especially HIV. Our lab mobilizes a spectrum of expertise including biophysics, microscopy, informatics and cell biology, and works in close collaboration with several experimental groups, many of them at Institut Pasteur.
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Members
Former Members
2000
2000
Name
Position
2017
2020
Elena Rensen
Post-doc
2015
2019
Jyotsana Parmar
Post-doc
2015
2019
Xian Hao
Post-doc
2015
2019
Andrey Aristov
Post-doc
2015
2019
Maxime Woringer
PhD Student
2015
2018
Wei Ouyang
PhD Student
2015
2018
Aubin Samacoits
PhD Student
2015
2020
Sébastien Herbert
Research Engineer
2015
2020
Joao Calado da Silva Freire
Post-doc
2015
2020
Benjamin King
visiting PhD student
2008
2012
Ricardo Henriques
Post-doc
2008
2014
Hua Wong
Post-doc
2015
2020
Hervé Marie-Nelly
PhD Student
2015
2020
Elena Rensen
Post-Doc
Projects
Transversal Project
Software
Tools
Fundings
Publications
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2025A relay race of ESCRT-III paralogs drives cell division in a hyperthermophilic archaeon, mBio 2025 Feb; 16(2): e0099124.
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2024A point cloud segmentation framework for image-based spatial transcriptomics., Commun Biol 2024 Jul; 7(1): 823.
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2024Deep learning-based detection of murine congenital heart defects from µCT scans, bioRxiv.
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2024Mitotic bookmarking redundancy by nuclear receptors in pluripotent cells., Nat Struct Mol Biol 2024 Jan; (): .
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2023
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2023Deep learning in image-based phenotypic drug discovery., Trends Cell Biol 2023 Jul; 33(7): 538-554.
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2023An interactive murine single-cell atlas of the lung responses to radiation injury., Nat Commun 2023 Apr; 14(1): 2445.
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2023Polymer simulations guide the detection and quantification of chromatin loop extrusion by imaging., Nucleic Acids Res 2023 Apr; 51(6): 2614-2632.
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2023A specific molecular signature in SARS-CoV-2-infected kidney biopsies., JCI Insight 2023 Mar; 8(5): .
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2023PointFISH: Learning Point Cloud Representations for RNA Localization Patterns, Computer Vision – ECCV 2022 Workshops.
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Contact
Email: czimmer@pasteur.fr Imaging and Modeling Unit Institut Pasteur 25-28 Rue du Docteur Roux 75015 Paris France