Reproducibility of 3D micro-CT gray-scale and structural dimension data in longitudinal studies

Steven M. Jorgensen, Diane R. Eaker, Andrew J. Vercnocke, Erik L. Ritman

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

2 Citations (Scopus)

Abstract

Repeated micro-CT scanning of a number of iliac crest biopsies enabled us to quantitate the variation in CT image gray-scale and spatial geometry due to variables such as specimen orientation, projection magnification, voxel size and slight differences in x-ray photon energy in each of the different scans. Using the micro-CT scanner on beamline X2B at the Brookhaven National Laboratory's National Synchrotron Light Source, we rescanned several iliac crest bone biopsy specimens, and a test phantom made of calcium hydroxyapatite, at repeated scanning sessions and evaluated the reproducibility of the spatial geometry and gray-scale characteristics of the specimens. This scanner consists of a Bragg diffraction source of monochromatic x-rays, a computer controlled high precision specimen rotation and translation stage assembly, and a fluorescent crystal and CCD array system for imaging the specimen at each of the angles of view around its axis of rotation during the scanning sequence. The 3-D micro-CT images consisted of up to 1024×24002, 4 μm, cubic voxels, each with 16-bit gray-scale. We also reconstructed the images at 16, 32 and 48 μm voxel resolution. Partial volume effects at the surface of the bone were diminished by 'eroding' the surface voxels in the 4 μm images, but significantly changed the outcome at greater voxel size. Reproducibility of the mineral content of bone, at mean bone opacity value, was ± 28.8 mg/cm3, i.e., 2.56%, in a 4 μm cubic voxel at the 95% confidence level.

Original languageEnglish (US)
Title of host publicationProgress in Biomedical Optics and Imaging - Proceedings of SPIE
Volume6143 II
DOIs
StatePublished - 2006
EventMedical Imaging 2006: Physiology, Function, and Structure from Medical Images - San Diego, CA, United States
Duration: Feb 12 2006Feb 14 2006

Other

OtherMedical Imaging 2006: Physiology, Function, and Structure from Medical Images
CountryUnited States
CitySan Diego, CA
Period2/12/062/14/06

Fingerprint

Bone
Biopsy
Scanning
X rays
Geometry
Opacity
Synchrotrons
Hydroxyapatite
Charge coupled devices
Light sources
Calcium
Minerals
Photons
Diffraction
Imaging techniques
Crystals

Keywords

  • Bone
  • Interpolation
  • Mineralization
  • Partial volume effects
  • Photon energy bandwidth
  • Voxel size
  • X-ray synchrotron

ASJC Scopus subject areas

  • Engineering(all)

Cite this

Jorgensen, S. M., Eaker, D. R., Vercnocke, A. J., & Ritman, E. L. (2006). Reproducibility of 3D micro-CT gray-scale and structural dimension data in longitudinal studies. In Progress in Biomedical Optics and Imaging - Proceedings of SPIE (Vol. 6143 II). [61433H] https://doi.org/10.1117/12.654436

Reproducibility of 3D micro-CT gray-scale and structural dimension data in longitudinal studies. / Jorgensen, Steven M.; Eaker, Diane R.; Vercnocke, Andrew J.; Ritman, Erik L.

Progress in Biomedical Optics and Imaging - Proceedings of SPIE. Vol. 6143 II 2006. 61433H.

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

Jorgensen, SM, Eaker, DR, Vercnocke, AJ & Ritman, EL 2006, Reproducibility of 3D micro-CT gray-scale and structural dimension data in longitudinal studies. in Progress in Biomedical Optics and Imaging - Proceedings of SPIE. vol. 6143 II, 61433H, Medical Imaging 2006: Physiology, Function, and Structure from Medical Images, San Diego, CA, United States, 2/12/06. https://doi.org/10.1117/12.654436
Jorgensen SM, Eaker DR, Vercnocke AJ, Ritman EL. Reproducibility of 3D micro-CT gray-scale and structural dimension data in longitudinal studies. In Progress in Biomedical Optics and Imaging - Proceedings of SPIE. Vol. 6143 II. 2006. 61433H https://doi.org/10.1117/12.654436
Jorgensen, Steven M. ; Eaker, Diane R. ; Vercnocke, Andrew J. ; Ritman, Erik L. / Reproducibility of 3D micro-CT gray-scale and structural dimension data in longitudinal studies. Progress in Biomedical Optics and Imaging - Proceedings of SPIE. Vol. 6143 II 2006.
@inproceedings{48aa3a6cff724903887c67466c15f0f6,
title = "Reproducibility of 3D micro-CT gray-scale and structural dimension data in longitudinal studies",
abstract = "Repeated micro-CT scanning of a number of iliac crest biopsies enabled us to quantitate the variation in CT image gray-scale and spatial geometry due to variables such as specimen orientation, projection magnification, voxel size and slight differences in x-ray photon energy in each of the different scans. Using the micro-CT scanner on beamline X2B at the Brookhaven National Laboratory's National Synchrotron Light Source, we rescanned several iliac crest bone biopsy specimens, and a test phantom made of calcium hydroxyapatite, at repeated scanning sessions and evaluated the reproducibility of the spatial geometry and gray-scale characteristics of the specimens. This scanner consists of a Bragg diffraction source of monochromatic x-rays, a computer controlled high precision specimen rotation and translation stage assembly, and a fluorescent crystal and CCD array system for imaging the specimen at each of the angles of view around its axis of rotation during the scanning sequence. The 3-D micro-CT images consisted of up to 1024×24002, 4 μm, cubic voxels, each with 16-bit gray-scale. We also reconstructed the images at 16, 32 and 48 μm voxel resolution. Partial volume effects at the surface of the bone were diminished by 'eroding' the surface voxels in the 4 μm images, but significantly changed the outcome at greater voxel size. Reproducibility of the mineral content of bone, at mean bone opacity value, was ± 28.8 mg/cm3, i.e., 2.56{\%}, in a 4 μm cubic voxel at the 95{\%} confidence level.",
keywords = "Bone, Interpolation, Mineralization, Partial volume effects, Photon energy bandwidth, Voxel size, X-ray synchrotron",
author = "Jorgensen, {Steven M.} and Eaker, {Diane R.} and Vercnocke, {Andrew J.} and Ritman, {Erik L.}",
year = "2006",
doi = "10.1117/12.654436",
language = "English (US)",
isbn = "0819461865",
volume = "6143 II",
booktitle = "Progress in Biomedical Optics and Imaging - Proceedings of SPIE",

}

TY - GEN

T1 - Reproducibility of 3D micro-CT gray-scale and structural dimension data in longitudinal studies

AU - Jorgensen, Steven M.

AU - Eaker, Diane R.

AU - Vercnocke, Andrew J.

AU - Ritman, Erik L.

PY - 2006

Y1 - 2006

N2 - Repeated micro-CT scanning of a number of iliac crest biopsies enabled us to quantitate the variation in CT image gray-scale and spatial geometry due to variables such as specimen orientation, projection magnification, voxel size and slight differences in x-ray photon energy in each of the different scans. Using the micro-CT scanner on beamline X2B at the Brookhaven National Laboratory's National Synchrotron Light Source, we rescanned several iliac crest bone biopsy specimens, and a test phantom made of calcium hydroxyapatite, at repeated scanning sessions and evaluated the reproducibility of the spatial geometry and gray-scale characteristics of the specimens. This scanner consists of a Bragg diffraction source of monochromatic x-rays, a computer controlled high precision specimen rotation and translation stage assembly, and a fluorescent crystal and CCD array system for imaging the specimen at each of the angles of view around its axis of rotation during the scanning sequence. The 3-D micro-CT images consisted of up to 1024×24002, 4 μm, cubic voxels, each with 16-bit gray-scale. We also reconstructed the images at 16, 32 and 48 μm voxel resolution. Partial volume effects at the surface of the bone were diminished by 'eroding' the surface voxels in the 4 μm images, but significantly changed the outcome at greater voxel size. Reproducibility of the mineral content of bone, at mean bone opacity value, was ± 28.8 mg/cm3, i.e., 2.56%, in a 4 μm cubic voxel at the 95% confidence level.

AB - Repeated micro-CT scanning of a number of iliac crest biopsies enabled us to quantitate the variation in CT image gray-scale and spatial geometry due to variables such as specimen orientation, projection magnification, voxel size and slight differences in x-ray photon energy in each of the different scans. Using the micro-CT scanner on beamline X2B at the Brookhaven National Laboratory's National Synchrotron Light Source, we rescanned several iliac crest bone biopsy specimens, and a test phantom made of calcium hydroxyapatite, at repeated scanning sessions and evaluated the reproducibility of the spatial geometry and gray-scale characteristics of the specimens. This scanner consists of a Bragg diffraction source of monochromatic x-rays, a computer controlled high precision specimen rotation and translation stage assembly, and a fluorescent crystal and CCD array system for imaging the specimen at each of the angles of view around its axis of rotation during the scanning sequence. The 3-D micro-CT images consisted of up to 1024×24002, 4 μm, cubic voxels, each with 16-bit gray-scale. We also reconstructed the images at 16, 32 and 48 μm voxel resolution. Partial volume effects at the surface of the bone were diminished by 'eroding' the surface voxels in the 4 μm images, but significantly changed the outcome at greater voxel size. Reproducibility of the mineral content of bone, at mean bone opacity value, was ± 28.8 mg/cm3, i.e., 2.56%, in a 4 μm cubic voxel at the 95% confidence level.

KW - Bone

KW - Interpolation

KW - Mineralization

KW - Partial volume effects

KW - Photon energy bandwidth

KW - Voxel size

KW - X-ray synchrotron

UR - http://www.scopus.com/inward/record.url?scp=33745369890&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=33745369890&partnerID=8YFLogxK

U2 - 10.1117/12.654436

DO - 10.1117/12.654436

M3 - Conference contribution

AN - SCOPUS:33745369890

SN - 0819461865

SN - 9780819461865

VL - 6143 II

BT - Progress in Biomedical Optics and Imaging - Proceedings of SPIE

ER -