Context-refined neural cell instance segmentation

Jingru Yi, Pengxiang Wu, Qiaoying Huang, Hui Qu, Daniel J. Hoeppner, Dimitris N. Metaxas

Research output: Chapter in Book/Report/Conference proceedingConference contribution

3 Scopus citations

Abstract

Neural cell instance segmentation serves as a valuable tool for the study of neural cell behaviors. In general, the instance segmentation methods compute the region of interest (ROI) through a detection module, where the segmentation is subsequently performed. To precisely segment the neural cells, especially their tiny and slender structures, existing work employs a u-net structure to preserve the low-level details and encode the high-level semantics. However, such method is insufficient for differentiating the adjacent cells when large parts of them are included in the same cropped ROI. To solve this problem, we propose a context-refined neural cell instance segmentation model that learns to suppress the background information. In particular, we employ a light-weight context refinement module to recalibrate the deep features and focus the model exclusively on the target cell within each cropped ROI. The proposed model is efficient and accurate, and experimental results demonstrate its superiority compared to the state-of-the-arts. Code is available at https://github.com/yijingru/CRNCIS-Pytorch.

Original languageEnglish (US)
Title of host publicationISBI 2019 - 2019 IEEE International Symposium on Biomedical Imaging
PublisherIEEE Computer Society
Pages1028-1032
Number of pages5
ISBN (Electronic)9781538636411
DOIs
StatePublished - Apr 2019
Event16th IEEE International Symposium on Biomedical Imaging, ISBI 2019 - Venice, Italy
Duration: Apr 8 2019Apr 11 2019

Publication series

NameProceedings - International Symposium on Biomedical Imaging
Volume2019-April
ISSN (Print)1945-7928
ISSN (Electronic)1945-8452

Conference

Conference16th IEEE International Symposium on Biomedical Imaging, ISBI 2019
Country/TerritoryItaly
CityVenice
Period4/8/194/11/19

All Science Journal Classification (ASJC) codes

  • Biomedical Engineering
  • Radiology Nuclear Medicine and imaging

Keywords

  • Detection
  • Instance segmentation
  • Neural cell analysis
  • SSD
  • Semantic segmentation
  • U-net

Fingerprint

Dive into the research topics of 'Context-refined neural cell instance segmentation'. Together they form a unique fingerprint.

Cite this