Curvilinear structures extraction in cluttered bioimaging data with discrete optimization methods

Nicolas Honnorat, Régis Vaillant, James S. Duncan, Nikos Paragios

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

5 Scopus citations

Abstract

Filamentary structures extraction in medical and biological images is a challenging problem. Muscular/Neural fibers, neurites and blood arteries are some examples. Their delineation is particularly problematic due to the lack of solid visual support that is also compromised by the presence of clutter and low signal to noise ratios. In this article, we propose a modular approach to curvilinear structures extraction based on recent advances in discrete optimization on the basis of aggregate clustering. Given an initial clustering of the detected points, first a pair-wise Markov Random Field (MRF) is considered to determine consistent elongated structures while penalizing their number and rejecting outliers. The outcome of this process is then locally refined through a non-submodular MRF aiming at center-line extraction process and guided by local geometric consistency between segments expressing the intra-cluster variability. Promising results for microtubules delineation in TIRFM images as well as for guidewires segmentation in fluoroscopic images demonstrate the potentials of the method.

Original languageEnglish (US)
Title of host publication2011 8th IEEE International Symposium on Biomedical Imaging
Subtitle of host publicationFrom Nano to Macro, ISBI'11
Pages1353-1357
Number of pages5
DOIs
StatePublished - 2011
Externally publishedYes
Event2011 8th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI'11 - Chicago, IL, United States
Duration: Mar 30 2011Apr 2 2011

Publication series

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

Other

Other2011 8th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI'11
Country/TerritoryUnited States
CityChicago, IL
Period3/30/114/2/11

Keywords

  • Curvilinear structures
  • Discrete optimization
  • Guide Wire Segmentation
  • Markov Random Fields
  • Microtubules

ASJC Scopus subject areas

  • Biomedical Engineering
  • Radiology Nuclear Medicine and imaging

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