Retrieving similar substructures on 3D neuron reconstructions

Brain Informatics

Xuefeng Liu¹  Yishan He¹  Jian Yang² 

[1] Faculty of Information Technology, Beijing University of Technology, Beijing, China;Beijing International Collaboration Base On Brain Informatics and Wisdom Services, Beijing, China;Faculty of Information Technology, Beijing University of Technology, Beijing, China;Beijing International Collaboration Base On Brain Informatics and Wisdom Services, Beijing, China;School of Artificial Intelligence, University of Chinese Academy of Sciences, Beijing, China;

关键词: Neuronal morphology;    Reconstruction;    Substructure;    Retrieving;   

DOI  :  10.1186/s40708-020-00117-x

来源: Springer

【 摘 要 】

Since manual tracing is time consuming and the performance of automatic tracing is unstable, it is still a challenging task to generate accurate neuron reconstruction efficiently and effectively. One strategy is generating a reconstruction automatically and then amending its inaccurate parts manually. Aiming at finding inaccurate substructures efficiently, we propose a pipeline to retrieve similar substructures on one or more neuron reconstructions, which are very similar to a marked problematic substructure. The pipeline consists of four steps: getting a marked substructure, constructing a query substructure, generating candidate substructures and retrieving most similar substructures. The retrieval procedure was tested on 163 gold standard reconstructions provided by the BigNeuron project and a reconstruction of a mouse’s large neuron. Experimental results showed that the implementation of the proposed methods is very efficient and all retrieved substructures are very similar to the marked one in numbers of nodes and branches, and degree of curvature.

【 授权许可】

CC BY