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21 septembre 2018

High Resolution Tomographic Diffractive Microscopy: Instrumentation and Image processing

Catégorie : Doctorant

PhD proposal in innovative microscopic imaging at IRIMAS (Institut de Recherche en Informatique, Mathématiques, Automatique et Signal), Université de Haute-Alsace, Mulhouse, France.


High Resolution Tomographic Diffractive Microscopy: Instrumentation and Image processing

Optical microscopy techniques are among the preferred methods for biological studies, thanks to their unique capability of imaging living specimens in 3-D. Tomographic diffractive microscopy (TDM) is a new technique, which permits to image transparent specimens in 3-D [1], without preparation or staining. It combines micro-holography with tomographic acquisitions, performed by either specimen rotation or illumination scanning. It allows for the measurement of the specimen index of refraction distribution in 3-D, and with a resolution twice better than conventional microscopy (Fig .1).

IRIMAS has built such a microscope [2,3], which has demonstrated its higher lateral resolution in transmission mode [4,5], or improved sectioning capabilities in reflection mode [6,7]. We have also developed a world-premiere system, delivering an isotropic 3-D resolution in the 100 nm range [8].

Development of the technique, in the framework of the proposed PhD, will concern two domains:

1) instrumental developments: speed of acquisition shall be improved, and new imaging modalities are to be implemented: polarized acquisitions for birefringence measurements, multi-spectral TDM imaging, functionalized tomographic imaging by temporal heterodyning, to detect motions within the sample (such a flowing blood cells for example) etc...

2) image processing: the reconstruction methods we use up-to-know are based on the very fast first Born approximation [9]. They however present limitations. The PhD student will therefore also develop advanced image reconstruction techniques, in order to further improve the resolution (by linear and non-linear deconvolution of the images), or simplify/accelerate acquisitions, by sparse acquisitions combined to elaborate image reconstructions.

Profile: competences in optics and/or image processing and/or computer sciences are necessary.

The selected candidate will join an active and recognized research group. Theoretical and numerical work will be carried out with LaHC St-Etienne and experiences on biological samples will be performed with the Imaging Platform of IGBMC in Strasbourg, as this project is supported by the collaborative project ANR HORUS: High Optical Resolution for Unlabelled Samples.

PhD could start 1st January 2019, when appropriate candidate is identified.

For more information, contact:
Pr. Olivier Haeberlé olivier.haeberle@uha.fr Dr. Nicolas Verrier nicolas.verrier@uha.fr


[1] O. Haeberlé, K. Belkebir, H. Giovaninni and A. Santenac J. Mod. Opt. 57, p. 686 (2010)
[2] M. Debailleul, B. Simon, V. Georges, V. Lauer, O. Haeberlé, Meas. Sci. Technol. 19, 074009 (2008)
[3] B. Simon, M. Debailleul, V. Georges, V. Lauer, O. Haeberlé, Eur. Phys. J. Appl. Phys. 44, p. 29 (2008)
[4] M. Debailleul, V. Georges, B. Simon, R. Morin and O. Haeberlé, Opt. Lett. 34, p. 79 (2009)
[5] B. Simon, M. Debailleul, A. Beghin, Y. Tourneur, O. Haeberlé, J. Biophotonics, 3, p. 462 (2010)
[6] M. Sarmis, B. Simon, M. Debailleul, B. Colicchio, V. Georges, J.-J. Delaunay and O. Haeberlé, J. Mod. Opt. 57, p. 740 (2010)
[7] H. Liu, J. Bailleul, B. Simon, M. Debailleul, B. Colicchio and O. Haeberlé, Appl. Opt. 53, p. 748 (2014)
[8] B. Simon, et al., Optica 4, p. 460 (2017)
[9] J. Bailleul, B. Simon, M. Debailleul, L. Foucault, N. Verrier, and O. Haeberlé, Opt. Comm. 422, p. 28 (2018)


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