Reference : UMR9002-EDOBER-003
Workplace : MONTPELLIER
Date of publication : Thursday, June 23, 2022
Type of Contract : FTC Technical / Administrative
Contract Period : 24 months
Expected date of employment : 1 September 2022
Proportion of work : Full time
Remuneration : 2172 - 2293 euros/month depending on experience
Desired level of education : 5-year university degree
Experience required : Indifferent
analysis of gene expression in single cells by high throughput detection of single mRNAs in microscopy images.
-Analysis of large sets of single molecule FISH (smFISH) images using existing tools.
-Adapt and develop image analysis tools to answer specific questions (using traditional and artificial intelligence methods).
-Generate figures, participate in manuscript writing, make oral presentations.
-Manage data in accordance with FAIR principles
Master in Biology, Bioinformatics or Biophysics. Competence and/or familiarity in Python scripting, image analysis concepts and tools. Strong interest to work within an inter-disciplinary collaborations and to work autonomously while integrated in a team.
-Characterizing gene expression at the level of single cells and in the context of the cellular space is a difficult challenge that is driving important conceptual breakthroughs. Messenger RNAs are synthesized at a gene in the nucleoplasm and translated into proteins at specific cytoplasmic locations. Single molecule FISH (smFISH) identifies and localizes all mRNA molecules produced by a given gene, in every cell of large populations. SmFISH thus possesses unique advantages to study gene expression, mRNA localization and local translation. In this project, we will use traditional and AI image analysis approaches to process large scale smFISH screens. The candidate will use, adapt and further develop existing analysis tools to answer several biological questions related to RNA localization and local translation. For instance, the candidate will: (i) quantify RNA localization at the proximity of P-bodies (small cytoplasmic structures), and how this varies from cell-to-cell; (ii) quantify RNA localization in neurons and how the RNA localization pattern is altered in neurodegenerative diseases. The data will be provided by the biological team and will be analyzed by the candidate.
The work will be performed in Thomas Walter lab at the Ecole des Mines in Paris (https://thomaswalter.github.io); Florian Müller in Pasteur (https://research.pasteur.fr/fr/member/florian-muller/); Edouard Bertrand lab at the IGH/CNRS in Montpellier (https://www.igh.cnrs.fr/en/).
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