Title :
3D reconstruction of neurons in electron microscopy images
Author :
Ensafi, Shahab ; Shijian Lu ; Kassim, Ashraf A. ; Chew Lim Tan
Author_Institution :
Electr. & Comput. Eng., Nat. Univ. of Singapore, Singapore, Singapore
Abstract :
With the prevalence of brain-related diseases like Alzheimer in an increasing ageing population, Connectomics, the study of connections between neurons of the human brain, has emerged as a novel and challenging research topic. Accurate and fully automatic algorithms are needed to deal with the increasing amount of data from the brain images. This paper presents an automatic 3D neuron reconstruction technique where neurons within each slice image are first segmented and then linked across multiple slices within the publicly available Electron Microscopy dataset (SNEMI3D). First, random Forest classifier is adapted on top of superpixels for the neuron segmentation within each slice image. The maximum overlap between two consecutive images is then calculated for neuron linking, where the adjacency matrix of two different labeling of the segments is used to distinguish neuron merging and splitting. Experiments over the SNEMI3D dataset show that the proposed technique is efficient and accurate.
Keywords :
brain; diseases; image classification; image reconstruction; image segmentation; medical image processing; neurophysiology; scanning electron microscopy; Alzheimer diseases; adjacency matrix; ageing population; automatic 3D neuron reconstruction technique; brain-related diseases; connectomics; consecutive images; electron microscopy dataset SNEMI3D; electron microscopy images; fully automatic algorithms; human brain; multiple slices; random Forest classifier; slice image segmentation; superpixels; Couplings; Image segmentation; Joining processes; Merging; Microscopy; Neurons; Three-dimensional displays;
Conference_Titel :
Engineering in Medicine and Biology Society (EMBC), 2014 36th Annual International Conference of the IEEE
Conference_Location :
Chicago, IL
DOI :
10.1109/EMBC.2014.6945173