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A novel framework for Z-registration of electron microscopy image stacks

Konetschnig, J, Saetzler, Kurt and Elbischger, P (2010) A novel framework for Z-registration of electron microscopy image stacks. In: 34th Workshop of the Austrian Association for Pattern Recognition (AAPR/ÖAGM'10), Zwettl, Waldviertel, Austria. Österreichische Computer Gesellschaft (OCG). 8 pp. [Conference contribution]

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Recent developments in electron microscopy (EM) indicate that focused ion beam (FIB) in combination with field emission scanning electron microscopy (FESEM) presents promising results in capturing the structure Nanogold R marked histones within mitotic chromosomes. In order to compute a three-dimensional density map of their distribution within the chromosome, the generated image series has to be registered. This work introduces a new registration framework built into OpenCAR, a novel open source software for three dimensional reconstruction of biological structures. The scaleinvariant feature transform (SIFT) is used for identifying landmarks within the images. A modified random sample consensus (RANSAC) algorithm then optimizes the transformation model using the generated landmarks. The registration framework is evaluated using serial block-face scanning electron microscopy (SBFSEM) images of neuronal structures as ground truth for accuracy evaluation and FIB/FESEM images of chromosomes are used for repeatability assessment. Delivering promising results in aligning FIB/FESEM image stacks, the proposed method offers an excellent framework for assisting in the 3D reconstruction process of EM image series.

Item Type:Conference contribution (Poster)
Faculties and Schools:Faculty of Life and Health Sciences > School of Biomedical Sciences
Faculty of Life and Health Sciences
Research Institutes and Groups:Biomedical Sciences Research Institute > Genomic Medicine
Biomedical Sciences Research Institute
ID Code:20223
Deposited By: Dr Kurt Saetzler
Deposited On:04 Oct 2011 09:23
Last Modified:04 Oct 2011 09:23

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