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Multimodal image registration in 2D and 3D correlative microscopy

Abstract : This thesis is concerned with the definition of an automated registration framework for 2D and 3D correlative microscopy images, in particular for correlative light and electron microscopy (CLEM) images. In recent years, CLEM has become an important and powerful tool in the bioimaging field. By using CLEM, complementary information can be collected from a biological sample. An overlay of the different microscopy images is commonly achieved using techniques involving manual assistance at several steps, which is demanding and time consuming for biologists. To facilitate and disseminate the CLEM process for biologists, the thesis work is focused on creating automatic registration methods that are reliable, easy to use and do not require parameter tuning or complex knowledge. CLEM registration has to deal with many issues due to the differences between electron microscopy and light microscopy images and their acquisition, both in terms of pixel resolution, image size, content, field of view and appearance. We have designed intensity-based methods to align CLEM images in 2D and 3D. They involved a common representation of the LM and EM images using the LoG transform, a pre-alignment step exploiting histogram-based similarities within an exhaustive search, and a fine mutual information-based registration. In addition, we have defined a robust motion model selection method, and a multiscale spot detection method which were exploited in the 2D CLEM registration. Our automated CLEM registration framework was successfully tested on several real 2D and 3D CLEM datasets and the resultswere validated by biologists, offering an excellent perspective in the usefulness of our methods.
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Contributor : Bertha Mayela Toledo Acosta <>
Submitted on : Thursday, September 6, 2018 - 1:27:00 AM
Last modification on : Friday, October 23, 2020 - 4:38:59 PM
Long-term archiving on: : Friday, December 7, 2018 - 2:22:42 PM


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  • HAL Id : tel-01868852, version 1



Bertha Mayela Toledo Acosta. Multimodal image registration in 2D and 3D correlative microscopy. Signal and Image Processing. Rennes 1, 2018. English. ⟨tel-01868852⟩



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