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Available positions

Team SIBARITA : Software engineer in super-resolution microscopy
2021-06-21

Open software engineer position on ANR STABLE-FP. Within the team "Quantitative Imaging of the Cell", the engineer will be tasked to develop quantitative analysis tools for high content analysis of single molecule localization microscopy data, helping to design new photo-convertible fluorescent proteins for SMLM. The expected missions are: i) to develop an analysis platform to characterize fluorophore photophysics from the single molecule localization data, under various experimental conditions; ii) to help performing and optimizing the screening using the HCS-SMLM platform developed in the team.

This work builds on 2 of our Nature Methods paper [1,2] and is part of an interdisciplinary project conducted with the teams of Daniel Choquet (IINS, Bordeaux), Dominique Bourgeois (IBS, Grenoble) and the Bordeaux Imaging Center.

For project details and all other inquiries, please contact;

Dr. Jean-Baptiste Sibarita
E-mail : jean-baptiste.sibarita@u-bordeaux.fr
Tel : +33 (0) 5 33 51 47 06

[1] Beghin, A., et al., Localization-based super-resolution imaging meets high-content screening. Nat Methods, 2017. 14(12): p. 1184-1190.

[2] Levet, F., et al., SR-Tesseler: a method to segment and quantify localization-based super-resolution microscopy data. Nat Methods, 2015. 12(11): p. 1065-71.

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Team SIBARITA : Postdoc in Deep Learning and Image Processing
2021-06-21

Open Postdoc position on ANR NANO-SYNATLAS. Our goal with this project is to provide a better understanding on how specific protein-protein interactions regulate synapse dynamics and organization. Within the team "Quantitative Imaging of the Cell", the Postdoc will be tasked to process the abundant image and single molecule localization data acquired by our PALM/STED correlative platform 1 by developing a complete analysis toolbox. This toolbox will allow: (i) efficient segmentation and classification of synapse morphology by using Deep Learning, (ii) automatic quantification of protein organization and dynamics extracted from SMLM data, and (iii) fusion of the nanoscale morpho-dynamic information and creation of an analytical models of the synapse through geometric analysis, parametrization and normalization.

This work builds on several of our highly successful recent methods (2 Nature Methods 1,2, 1 Nature Communications 3, 1 Methods 4) and is part of an interdisciplinary project conducted with the team of Olivier Thoumine (IINS, Bordeaux).

For project details and all other inquiries, please contact;

Dr. Florian Levet
E-mail : florian.levet@u-bordeaux.fr
Tel : +33 (0) 5 33 51 47 47

1.           Inavalli, V.V.G.K. et al. A super-resolution platform for correlative live single-molecule imaging and STED microscopy Nat. Methods 16,  (2019). DOI:10.1038/s41592-019-0611-8

2.           Levet, F. et al. SR-Tesseler: A method to segment and quantify localization-based super-resolution microscopy data Nat. Methods 12,  (2015). DOI:10.1038/nmeth.3579

3.           Levet, F. et al. A tessellation-based colocalization analysis approach for single-molecule localization microscopy Nat. Commun. 10, 1–12 (2019). DOI:10.1038/s41467-019-10007-4

4.           Levet, F., Tønnesen, J., Nägerl, U.V. & Sibarita, J.B. SpineJ: A software tool for quantitative analysis of nanoscale spine morphology Methods 0–1 (2020).doi:10.1016/j.ymeth.2020.01.020. DOI:10.1016/j.ymeth.2020.01.020

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Team CHOQUET : Engineer in super-resolution microscopy
2021-03-08

Within the team "Dynamic Organization of Synapses", the engineer will be tasked to conduct super-resolution imaging experiments based on single molecule detection, STED, expansion microscopy, etc. for the study of the nanoscale organization of synaptic proteins.

He/she will be placed under the direct responsibility of the group leader and will work closely with the other researchers in the team to provide support to all of the team's projects requiring super-resolution approaches. He/she will also work in partnership with the other teams in the unit using these approaches as well as with the Bordeaux Imaging Center imaging platform and will participate in the team's internal and external collaborative projects. He/she will be required to work in international collaborations in this area. He/she will be responsible for the development of new sample preparation and image acquisition protocols. He/she will participate in the methodological and instrumental developments in super-resolution imaging carried out within the team. It will also process and analyze the corresponding data. He/she will provide advice and support to team members on these technologies. He/she will conduct projects, analyze, render and trace the results.

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Team ELEGHEERT : 2 ERC-funded postdoctoral research positions
2020-11-16

2 ERC-funded postdoctoral research positions are available immediately to study the structure and therapeutic targeting of neuronal cell-surface receptors and protein complexes.

The projects will involve mammalian protein production, protein chemistry, biophysical interaction analysis, X-ray crystallography, cryo-EM and discovery of Nanobodies (Nbs).

The candidate(s) must hold a PhD degree and have less than two years of post-doctoral experience at the start of the contract. The candidate(s) should have a solid background in molecular biology, biochemistry and/or structural biology. Experience with (i) mammalian expression systems (HEK293 cell lines), (ii) biophysical analysis methods (surface plasmon resonance, isothermal titration calorimetry, microscale thermophoresis, etc.), and (iii) X-ray crystallography or cryo-EM, is preferred. The candidate should be highly motivated, a team player, and have a can-do problem-solving attitude.

The project will be carried out under the supervision and mentorship of Dr. Jonathan Elegheert at the IINS in Bordeaux, France, which is recognised for its expertise in molecular and cellular neuroscience, and which is further embedded within the Bordeaux Neurocampus, a vibrant community of more than 700 neuroscientists.

For project details and all other inquiries, please contact;

Dr. Jonathan Elegheert
E-mail : jonathan.elegheert@u-bordeaux.fr
Tel : +33-(0)5.33.51.48.57

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Team ROUX : The team is hiring!
2020-11-15

Open postdoctoral position on ERC SociOlfa project. Motivated candidates can send their application and CV to: lisa.roux@u-bordeaux.fr

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      


Team TAKAHASHI : We are hiring!
2020-11-15

We currently have open positions for two postdocs and one technical assistant.

The postdoc positions belong to the recently funded project “Cellular and circuit basis of attentional modulation of tactile sensory processing” (by ATIP-Avenir2020). In this project, we will apply in vivo imaging methods to investigate cortical sensory processing at the subcellular resolution (i.e., synapses, dendrites) in head-fixed mice performing a tactile task.

The successful candidate holding a PhD will show proven experience in neurophysiology (e.g., two-photon imaging, electrophysiology, mouse behavior) in addition to a strong scientific motivation. Programing skills in matlab or python are required.

For the Technical assistant position, the suitable candidate will have skills in one or more of: immunohistochemistry, epi-fluorescent/confocal microscopy, stereotactic surgery, handing and training mice, programming (matlab, python).

Please send your CV, a short description of research interest, and the name and contact details of two referees to naoya.takahashi@u-bordeaux.fr


Team NAGERL : PhD position in Neurophotonics
None

Qualifications: Background and interest in experimental physics, optics or engineering, and brain science, exceptional self-motivation, autonomy and creativity and team player

Offer:  PhD project in the Nägerl team at the cutting-edge interface of optical method development, super-resolution microscopy and neuroscience, embedded in the graduate program EUR Light S&T and Bordeaux Neurocampus at the University of Bordeaux.

References:

How to apply? Email i) a cover letter explaining your interests and motivation, ii) CV, and iii) a reference letter to: Prof. Dr. U. Valentin Nägerl (valentin.nagerl@u-bordeaux.fr).


Team NAGERL : Research engineer position in Neurophotonics for ERC project
None

The Nägerl team is recruiting a research engineer/lab tech/postdoc (depending on qualifications) to help build, improve, test and run new optical microscopy techniques, with a special focus on super-resolution fluorescence microscopy.

The task is to optimize and apply them to living mouse brain tissue and in vivo.

You will implement, develop and use state-of-the-arts and innovative fluorescence labeling approaches, sample preparation, custom-designed illumination and light detection schemes and (computational) data analysis. You will work together with other team members and assist them in tackling the technical challenges.

high affinity for technology and all things optical is a must, troubleshooting, tinkering and general resourcefulness and ingenuity. Programming skills (Python/Matlab/LabView) is a plus, as well as a deep curiosity about the mysteries of biological phenomena and mechanisms.

The goal is to visualize dynamic cellular brain structures and processes, to see them more clearly and directly, more inclusively and contextually, faster and deeper, less invasively and less tediously so.

Beyond registering exciting new observations, we want to make neurobiological sense out of them. To help decrypt the wonders of synapses, neurons and the brain, nothing less!

The job is part of a ERC-Synergy project with a long-term perspective and a thriving and dynamic workplace environment in a major European research and training center for neuroscience and  photonics.

Contact: valentin.nagerl@u-bordeaux.fr