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Fast segmentation and high-quality three-dimensional volume mesh creation from medical images for diffuse optical tomography.

Multimodal approaches that combine near-infrared (NIR) and conventional imaging modalities have been shown to improve optical parameter estimation dramatically and thus represent a prevailing trend in NIR imaging. These approaches typically involve applying anatomical templates from magnetic resonance imaging/computed tomography/ultrasound images to guide the recovery of optical parameters. However, merging these data sets using current technology requires multiple software packages, substantial expertise, significant time-commitment, and often results in unacceptably poor mesh quality for optical image reconstruction, a reality that represents a significant roadblock for translational research of multimodal NIR imaging. This work addresses these challenges directly by introducing automated digital imaging and communications in medicine image stack segmentation and a new one-click three-dimensional mesh generator optimized for multimodal NIR imaging, and combining these capabilities into a single software package (available for free download) with a streamlined workflow. Image processing time and mesh quality benchmarks were examined for four common multimodal NIR use-cases (breast, brain, pancreas, and small animal) and were compared to a commercial image processing package. Applying these tools resulted in a fivefold decrease in image processing time and 62% improvement in minimum mesh quality, in the absence of extra mesh postprocessing. These capabilities represent a significant step toward enabling translational multimodal NIR research for both expert and nonexpert users in an open-source platform.

Pubmed ID: 23942632


  • Jermyn M
  • Ghadyani H
  • Mastanduno MA
  • Turner W
  • Davis SC
  • Dehghani H
  • Pogue BW


Journal of biomedical optics

Publication Data

August 14, 2013

Associated Grants

  • Agency: NCI NIH HHS, Id: P01 CA84203
  • Agency: NCI NIH HHS, Id: R01 CA132750

Mesh Terms

  • Algorithms
  • Image Enhancement
  • Image Interpretation, Computer-Assisted
  • Imaging, Three-Dimensional
  • Pattern Recognition, Automated
  • Reproducibility of Results
  • Sensitivity and Specificity
  • Software
  • Spectroscopy, Near-Infrared
  • Tomography, Optical