Post-Doctoral Research Visit F/M Image analysis for multicellular tissues

  • Post-doc / Ingénieur de recherche
  • Paris

Context
INRIA has developed a strong expertise in mathematical modeling of biological systems with medical applications.
Working closely with clinicians from several renowned French and German hospitals and one of the best biology and toxicology institutes in Germany, the team Mamba at its INRIA collaborators have been working on the liver for many years, developing models of liver lesions and regeneration, including tissue lesions of the micro-architecture of the liver. They are currently involved in various projects, including the study of fibrosis and cirrhosis to help the development of clinical treatments, the development of a liver created by bioengineering and the study of hepatic intoxication due to paracetamol.
Recently, the activities are also extended to other disesases such as lymphoma of the central nervous system, where similar methodologies can be applied.
Assignment
The position will be under the main direction of D. Drasdo. The work is within a collaboration with Hôpital Paul Brousse & Kremlin-Bicêtre / INSERM, Hôpital Universitaire La Pitié Salpêtrière, Paris, Inst. Curie, and the INRIA team Monc / Bordeaux within two projects, one funded by ANR, the second by the Natl. Inst. of Cancer in France. This requires regular meetings with medical doctors.

The candidate should develop image analysis methods and pipelines to quantify image information of mainly images at the histological level. This concerns images of liver micro-architecture, in vitro systems and lymphmas of the central nervous system (PCNSL). The image information will subsequently be used to set up, parameterize, and validate mechanistic mathematical models. Hence, interest or/and skills in modeling are welcome.

As we use to provide our partners also with image analysis software, we encourage the implementation of pipelines in TiQuant (Friebel et. al., Bioinformatics, 2015).

The recruited person should meet with clinicians and coordinate our image analysis activities with internal and external partners.
Main activities
Image analysis of clinical histological images and images from non-invasive imaging modalities.
Implentation into re-usable software, for example TiQuant. The latter permits direct use to biological and clinical partners and implementation of pipelines in clinical environments.
Interaction and coordination of our groups’ activities with our partners from Hôpital Universitaire La Pitié Salpêtrière, Paris, Inst. Curie, and the INRIA team Monc / Bordeaux.
Reporting about our activities.

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