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Subhadip Basu, Ph.D.
Department of Computer Sc. & Engineering,
Jadavpur University, Kolkata, INDIA
A theory and algorithm for separating two structures sharing a common intensity band and conjoined at different unknown locations and scales, is presented
The method is applied for segmenting vasculature in patients with intracranial aneurysms via CT angiography (CTA)
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The segmentation for bone and vessels combines fuzzy distance transform and fuzzy connectivity to iteratively open two objects starting at large scales and progressing toward smaller scales
The accuracy of the method has been examined both qualitatively and quantitatively on mathematically generated phantoms, CT images of a pig pulmonary vessel cast
phantom, and cerebral CT angiography images of human
subjects
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An axial image slice from a
human CT angiogram
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Intensity-based membership functions for vessel (red) and bone (green) along with pure and shared intensity bands.
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Multi-scale fusion of bone and vessel demands a locally adaptive multi-scale opening
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During an iteration, it opens two structures over a specific scale range by:
extending object separation from previous iteration using the optimum opening structure defined by FDT and fuzzy connectivity, and
dilate the two separated objects using constrained dilation
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After Local Normalization, FDT values lie within the interval [0,1].
Local scale is defined as the depth (i.e., the FDT value) at the nearest
locally-deepest voxels.
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A
Lower FDT value Higher FDT value
Strongest path between A
and B. FDT value of the
weakest point is higher than
the other path
Not the strongest path
between the A and B
SA SB
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SA SB
Undecided region, having FC Strength, γA= γB Strongest path between SA,SB
RB : Region
assigned to SB RA : Region
assigned to SA
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Morphologically dilated RA Morphologically dilated RB
Morphological neighborhood
Both separated regions
radially expand over
morphological neighborhood
until stopped by each other
Cross-sectional views
before after
reconstruction 18 05-04-2014 S. Basu,Jadavpur University, INDIA
After morphological reconstruction, the hollow annular region is filled in
Now, we are ready to expand the separation to the next finer scale
We start with the result of previous separation use it to determine seeds of individual objects
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To generate a vessel cast data, the animal was first exsanguinated.
While maintaining ventilation at low PEEP, the pulmonary vasculature was flushed with 1L 2% Dextran solution and pneumonectomy was performed.
While keeping the lungs inflated at approximately 22 cm H2O Pawy, a rapid hardening methyl methacrylate compound (Orthodontic Resin, DENTSPLY International, York, PA) was injected into the vasculature to create a cast of the pulmonary arterial and venous trees.
The casting compound was mixed with red oil paint for the venous (oxygenated) side and blue oil paint for the arterial (deoxygenated) side of the vascular beds.
Data courtesy: Dept. of Radiology, UIowa
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Axial and coronal image slices from the original CT image of the phantom with different
contrast for A/V trees. CT intensity-based classification of artery and vein where the effect of
partial voluming appears as thin red films wrapping around blue arteries.
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CT intensity histogram of the phantom, where the two CT intensity values Imin and
Iartery segments the background and pure artery regions
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Optimum thresholding
MSO algorithm
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(b) (c) Optimum thresholding MSO algorithm
CT angiogram data sets were collected using Siemens Somatom Sensation 16 scanner at 120 KV, rotation time of 0.5 sec, 0.75 pitch and 0.75 mm collimation. The contrast medium used was 75 cc of Omipaque 300.
Data courtesy: Dept. of BME,
Univ. of Iowa.
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CTA intensity histogram values Imin and Ibone segmenting the background and the pure
bone regions
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Cerebral
CTA Slice
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Fused bone and
vessel shown in
RED
Pure bone shown
in GREEN
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Bone-Vessel
segmentation after
1st iteration
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Bone-Vessel
segmentation after
2nd iteration
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Bone-Vessel
segmentation after
final iteration
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Cerebral
vasculature
segmented from
bone
Anearysm
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(b) (a) (c)
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Large scale objects
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Small scale objects
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Data#1 Data#2 Data#3 Data#4 Data#5
Error Large Vessel 1.688103 0.767222 2.925486 0.689809 0.209512
Error Small Vessel 1.339764 0.21221 0.361384 0.46729 2.053216
Error Large Bone 0.45552 0.375449 1.359491 0.267023 2.325581
Error Small Bone 0.133976 0.163239 0.103252 0.489542 0.398072
Total Error 3.617363 1.518119 4.749613 1.913663 4.986382
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To estimate intra-user reproducibility, we define “agreement” as:
AGR = (V1V2) (B1B2)/(V1V2 B1 B2) where V1 and V2 are volumes rendered from the set of
seeds marked by the user on two different runs of experiment
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Average agreement is 94.2 ± 3.8%.
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(a) (b)
(c) (d)
Scanner: Siemens Sensation 64
MDCT scanner
CT Parameters: 120 kVp and
100 mAs.
Scanned at 0.75 mm slice
thickness
Reconstructed at 0.5 mm slice-
thickness and 0.6x0.6mm2 in-
plane resolution.
Artery and Vein structures are
inseparable in intensity space
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Image courtesy: Prof. Punam K. Saha, Univ. of Iowa, USA
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Mutually blinded inter-
user reproducibility
Agreement: 93%
Image courtesy: Prof. Punam K. Saha, Univ. of Iowa, USA
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Mutually blinded inter-
user reproducibility
Agreement: 91%
Image courtesy: Prof. Punam K. Saha, Univ. of Iowa, USA
A novel approach for multi-scale opening in shared intensity space
A/V tree and B/V separation problems are solved using the developed
MSO algorithm
Results on computer-generated phantoms show high accuracy
Promising results on pig lung phantom and human cerebral CTA data
Possible extensions to problems with multi scale separation of objects
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Prof. Punam K Saha, Dept. of ECE, Univ. of Iowa
Prof. Eric Hoffman, Dept. of Radiology, Univ. of Iowa
Prof. M. L. Raghavan, Dept. of BME, Univ. of Iowa
Dr. Robert E. Harbaugh, Penn State Hershey Medical Center
My visit to the Structural Imaging Laboratory, Univ. of Iowa, USA, was funded by the BOYSCAST fellowship (SR/BY/E-15/09), Dept. of Science and Technology, Govt. of INDIA.
This study is supported in part by the FASTTRACK grant (SR/FTP/ETA-04/2012) by DST, Govt. of India.
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P.K. Saha, Z. Gao, S.K. Alford, M. Sonka, and E.A. Hoffman, “Topomorphologic separation of fused isointensity objects via multiscale opening: separating arteries and veins in 3-D pulmonary CT.,” IEEE Transactions on Medical Imaging, vol. 29, 2010, pp. 840-851
S. Basu, M. L. Raghavan, E. A. Hoffman, P. K. Saha, “Multi-scale opening of conjoined structures with shared intensities: methods and applications,” in Proc. IEEE International conference on Intelligent Computation and Bio-Medical Instrumentation (ICBMI 2011), Wuhan, China, December 14 - 17, , pp. 128-131, 2011.
S. Basu, M. L. Raghavan, P. K. Saha, “Vascular segmentation in CT angiography for patients with intracranial aneurysms using a new multi-scale opening algorithm,” in Proc. of International conference on Bio-Medical Engineering (ICBME 2011), Manipal, India, pp. 252-257, December 10 - 12, 2011.
Z. Gao, R. W. Grout, C. Holtze, E. A. Hoffman, and P. Saha, “A New Paradigm of Interactive Artery/Vein Separation in Noncontrast Pulmonary CT Imaging Using Multiscale Topomorphologic Opening.,” IEEE transactions on bio-medical engineering, vol. 59, no. 11, pp. 3016–27, Nov. 2012.
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