Clumped Nuclei Segmentation with Adjacent Point Match and Local Shape-Based Intensity Analysis in Fluorescence Microscopy Images

Xiaoyuan Guo, Hanyi Yu, Blair Rossetti, George Teodoro, Daniel Jay Brat, Jun Kong

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

Abstract

Highly clumped nuclei captured in fluorescence microscopy images are commonly observed in a wide spectrum of tissue-related biomedical investigations. To ensure the quality of downstream biomedical analyses, it is essential to accurately segment clustered nuclei. However, this presents a technical challenge as fluorescence intensity alone is often insufficient for recovering the true nuclei boundaries. In this paper, we propose an segmentation algorithm that identifies point pair connection candidates and evaluates adjacent point connections with a formulated ellipse fitting quality indicator. After connection relationships are determined, we recover the resulting dividing paths by following points with specific eigenvalues from the image Hessian in a constrained searching space. We validate our algorithm with 560 image patches from two classes of tumor regions of seven brain tumor patients. Both qualitative and quantitative experimental results suggest that our algorithm is promising for dividing overlapped nuclei in fluorescence microscopy images widely used in various biomedical research.

Original languageEnglish (US)
Title of host publication40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2018
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages3410-3413
Number of pages4
ISBN (Electronic)9781538636466
DOIs
StatePublished - Oct 26 2018
Event40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2018 - Honolulu, United States
Duration: Jul 18 2018Jul 21 2018

Publication series

NameProceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS
Volume2018-July
ISSN (Print)1557-170X

Other

Other40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2018
CountryUnited States
CityHonolulu
Period7/18/187/21/18

Fingerprint

Fluorescence microscopy
Fluorescence Microscopy
Tumors
Brain Neoplasms
Biomedical Research
Brain
Fluorescence
Tissue
Neoplasms

ASJC Scopus subject areas

  • Signal Processing
  • Biomedical Engineering
  • Computer Vision and Pattern Recognition
  • Health Informatics

Cite this

Guo, X., Yu, H., Rossetti, B., Teodoro, G., Brat, D. J., & Kong, J. (2018). Clumped Nuclei Segmentation with Adjacent Point Match and Local Shape-Based Intensity Analysis in Fluorescence Microscopy Images. In 40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2018 (pp. 3410-3413). [8512961] (Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS; Vol. 2018-July). Institute of Electrical and Electronics Engineers Inc.. https://doi.org/10.1109/EMBC.2018.8512961
Guo, Xiaoyuan ; Yu, Hanyi ; Rossetti, Blair ; Teodoro, George ; Brat, Daniel Jay ; Kong, Jun. / Clumped Nuclei Segmentation with Adjacent Point Match and Local Shape-Based Intensity Analysis in Fluorescence Microscopy Images. 40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2018. Institute of Electrical and Electronics Engineers Inc., 2018. pp. 3410-3413 (Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS).
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Guo, X, Yu, H, Rossetti, B, Teodoro, G, Brat, DJ & Kong, J 2018, Clumped Nuclei Segmentation with Adjacent Point Match and Local Shape-Based Intensity Analysis in Fluorescence Microscopy Images. in 40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2018., 8512961, Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS, vol. 2018-July, Institute of Electrical and Electronics Engineers Inc., pp. 3410-3413, 40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2018, Honolulu, United States, 7/18/18. https://doi.org/10.1109/EMBC.2018.8512961

Clumped Nuclei Segmentation with Adjacent Point Match and Local Shape-Based Intensity Analysis in Fluorescence Microscopy Images. / Guo, Xiaoyuan; Yu, Hanyi; Rossetti, Blair; Teodoro, George; Brat, Daniel Jay; Kong, Jun.

40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2018. Institute of Electrical and Electronics Engineers Inc., 2018. p. 3410-3413 8512961 (Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS; Vol. 2018-July).

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

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Guo X, Yu H, Rossetti B, Teodoro G, Brat DJ, Kong J. Clumped Nuclei Segmentation with Adjacent Point Match and Local Shape-Based Intensity Analysis in Fluorescence Microscopy Images. In 40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC 2018. Institute of Electrical and Electronics Engineers Inc. 2018. p. 3410-3413. 8512961. (Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS). https://doi.org/10.1109/EMBC.2018.8512961