Jelly filling segmentation of fluorescence microscopy images containing incomplete labeling

Neeraj J. Gadgil, Paul Salama, Kenneth W. Dunn, Edward J. Delp

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

3 Scopus citations

Abstract

Biological images acquired using fluorescence microscopy typically suffer from poor edge details, non-uniform brightness, decreasing image contrast with tissue depth and irregular/unknown structure. Hence they are consequently challenging to segment. In this paper, we present a segmentation method we call «Jelly filling» for analyzing biological volumes that also contain incomplete labeling. Our method uses adaptive thresholding, component analysis, and three-dimensional structural consistency to iteratively refine segments that represent physical quantities. Preliminary results obtained using fluorescence microscopy images of rat kidneys demonstrate the efficacy of the proposed method.

Original languageEnglish (US)
Title of host publication2016 IEEE International Symposium on Biomedical Imaging
Subtitle of host publicationFrom Nano to Macro, ISBI 2016 - Proceedings
PublisherIEEE Computer Society
Pages531-535
Number of pages5
ISBN (Electronic)9781479923502
DOIs
StatePublished - Jun 15 2016
Event2016 IEEE 13th International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2016 - Prague, Czech Republic
Duration: Apr 13 2016Apr 16 2016

Publication series

NameProceedings - International Symposium on Biomedical Imaging
Volume2016-June
ISSN (Print)1945-7928
ISSN (Electronic)1945-8452

Other

Other2016 IEEE 13th International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2016
CountryCzech Republic
CityPrague
Period4/13/164/16/16

Keywords

  • fluorescence microscopy
  • image segmentation

ASJC Scopus subject areas

  • Biomedical Engineering
  • Radiology Nuclear Medicine and imaging

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  • Cite this

    Gadgil, N. J., Salama, P., Dunn, K. W., & Delp, E. J. (2016). Jelly filling segmentation of fluorescence microscopy images containing incomplete labeling. In 2016 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2016 - Proceedings (pp. 531-535). [7493324] (Proceedings - International Symposium on Biomedical Imaging; Vol. 2016-June). IEEE Computer Society. https://doi.org/10.1109/ISBI.2016.7493324