Engineer position in Image Analysis (2 years, renewable)

Engineer position in Image Analysis (2 years, renewable)

Available from: September 16, 2019

Send CV, publications, summary and references to:
Antoine Coulon through the 'Portail Emploi' of the CNRS ( If you have questions before applying, you can contact us at

Position Information:

Our team “Genome Functions in Space and Time” studies the 3D organization and dynamics of chromosomes in the cell nucleus and its role in regulating gene expression. We use and develop a panel of single-molecule techniques in both live and fixed cells to image DNA, RNAs and proteins inside the nucleus. Our interdisciplinary group also develops computational tools for data analysis and physical models of the genome and the nucleus.

The team is co-affiliated with a biology research unit (Nuclear Dynamics, UMR3664) and a physics research unit (Physical Chemistry, UMR168) at Institut Curie.

RESPONSIBILITIES AND PROJECTS:

As the image analyst of the team, you will have the chance to work on multiple projects. Your responsibilities will be:

• To work with team members to analyze and help them analyze their own data
• To implement pipelines for automated high-throughput image analysis
• To develop new tools and expand current techniques in the following areas:
  • High-precision 3D reconstruction & quantification from sequential imaging techniques (Oligopaints, MERFISH)
  • Spectral and kinetic demultiplexing
  • Multi-target tracking of particles in high-density and/or multi-channel images
  • Spatio-temporal correlative approaches for quantitative analysis of super-resolution and single particle tracking (SPT) data
  • Automated microscope control
• To oversee software development (versioning, distribution) and data management practices (annotation, processing, storage) in the team.

PROFILE AND EXPERTISE:

*** : required ** : recommended * : appreciated

*** M.Sc., M.Eng. or Ph.D. degree in Computer Science , Physics or Mathematics

*** Python , SciPy , Matplotlib, scikit-image, Fiji/ImageJ
* Data visualization (PyViz, HoloViews, Bokeh)

*** High-density 3D spot detection/tracking, sub-pixel volumetric segmentation
** Super-resolution image reconstruction: PALM/STORM/PAINT, SOFI, SRRF
* Frequency-domain signal theory, mathematics of stochastic processes, model-based image analysis, optical flow

*** Scripting, software development, version control (Git, GitLab)
* Parallel/cluster computing (CentOS)
* Basic system admin (macOS, Windows, Linux)

** Micro-Manager: use and programming (BeanShell…)
* Optics development, microcontroller programming (Arduino)

*** Proficiency in English (written, spoken), which is the working language of the group
** Organization skills, autonomy, ability to communicate and present data/results

APPLICATION:

Please upload a cover letter and your CV with the contact details of 2-3 references on the ‘Portail Emploi’ of the CNRS: (job ref UMR3664-ANTCOU-002). If you have questions about the position, please contact Antoine Coulon at

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Location: Paris, FR

Posted Date: 1/8/2025