2018/07/29 by Sharib Ali, Ali, Sharib, Martin Schöber +9
Biochemistry, Genetics and Molecular Biology · Computer Science · Medicine · #Advanced Vision and Imaging #Cell Image Analysis Techniques #Computer Vision and Pattern Recognition (cs.CV) #FOS: Computer and information sciences #Medical Image Segmentation Techniques #Optical Imaging and Spectroscopy Techniques
paper · pdf · doi:10.48550/arxiv.1807.11080
openalex publication_date 2018/07/29 · openalex created_date 2025/10/10 · openalex updated_date 2026/07/28
3D reconstruction of the fiber connectivity of the rat brain at microscopic\nscale enables gaining detailed insight about the complex structural\norganization of the brain. We introduce a new method for registration and 3D\nreconstruction of high- and ultra-high resolution (64 \μm and 1.3 \μm\npixel size) histological images of a Wistar rat brain acquired by 3D polarized\nlight imaging (3D-PLI). Our method exploits multi-scale and multi-modal 3D-PLI\ndata up to cellular resolution. We propose a new feature transform-based\nsimilarity measure and a weighted regularization scheme for accurate and robust\nnon-rigid registration. To transform the 1.3 \μm ultra-high resolution data\nto the reference blockface images a feature-based registration method followed\nby a non-rigid registration is proposed. Our approach has been successfully\napplied to 278 histological sections of a rat brain and the performance has\nbeen quantitatively evaluated using manually placed landmarks by an expert.\n