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Research ArticleBrain
Open Access

Automated Posterior Cranial Fossa Volumetry by MRI: Applications to Chiari Malformation Type I

A.M. Bagci, S.H. Lee, N. Nagornaya, B.A. Green and N. Alperin
American Journal of Neuroradiology September 2013, 34 (9) 1758-1763; DOI: https://doi.org/10.3174/ajnr.A3435
A.M. Bagci
aFrom the Departments of Radiology (A.M.B., S.H.L., N.N., N.A.)
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S.H. Lee
aFrom the Departments of Radiology (A.M.B., S.H.L., N.N., N.A.)
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N. Nagornaya
aFrom the Departments of Radiology (A.M.B., S.H.L., N.N., N.A.)
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B.A. Green
bNeurological Surgery (B.A.G.), University of Miami, Miami, Florida.
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N. Alperin
aFrom the Departments of Radiology (A.M.B., S.H.L., N.N., N.A.)
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    Fig 1.

    The 6 linear landmarks of the PCF superimposed on a midsagittal T1-weighted MR imaging from a patient with CMI: herniation (HR), McRae line (MC), clivus (CL), Twining line (TW), cerebellum (CR), and supraocciput (SO).

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    Fig 2.

    Chiari-specific atlas template and the boundary of the PCF compartment (red outline) shown in sagittal (A and B) and axial (C and D) planes. A 3D volumetric rendering of the PCF mask (blue) generated from the atlas template and surrounding cranium (white) are shown in E and F.

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    Fig 3.

    Flow chart illustrating the FSL implementation of the automated process for PCF segmentation and measurement of the PCF tissue volume.

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    Fig 4.

    Outline of the PCF mask (red) generated by use of the proposed method on midsagittal (A) and axial (B) planes of T1-weighted MR imaging of a patient with CMI.

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    Fig 5.

    Comparison of PCF volume obtained manually and with the automated segmentation in CMI. The Dice similarity coefficient (DSC) and the relative percent change obtained for each of the 5 patients are shown above the volume bars.

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    Fig 6.

    Outline of the PCF tissue masks (red) generated by use of the proposed method (A) and FreeSurfer (B) in 1 of the patients with CMI.

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    Table 1:

    Repeated automated PCF volumes measurements

    SubjectAge/SexPCF Volume (mL), Scan 1PCF Volume (mL), Scan 2Relative Percentage Difference
    136/M186.1186.80.4%
    229/M207.5205.90.8%
    336/F194.7195.60.5%
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    Table 2:

    Comparison of PCF tissue segmentation by means of the proposed method and FreeSurfer

    PatientPCF Tissue Volume (mL) (Proposed Method)PCF Tissue Volume (mL) (FreeSurfer)Percentage Volume DifferenceDice CoefficientCrowdedness Index (Proposed Method)Crowdedness Index (FreeSurfer)
    1162.8169.44.1%0.9490.8420.876
    2172.1181.65.5%0.9390.8280.874
    3151.9156.22.8%0.9400.8240.847
    4170.1174.02.3%0.9480.8310.850
    5153.9158.63.1%0.9490.8060.830
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American Journal of Neuroradiology: 34 (9)
American Journal of Neuroradiology
Vol. 34, Issue 9
1 Sep 2013
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Cite this article
A.M. Bagci, S.H. Lee, N. Nagornaya, B.A. Green, N. Alperin
Automated Posterior Cranial Fossa Volumetry by MRI: Applications to Chiari Malformation Type I
American Journal of Neuroradiology Sep 2013, 34 (9) 1758-1763; DOI: 10.3174/ajnr.A3435

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Automated Posterior Cranial Fossa Volumetry by MRI: Applications to Chiari Malformation Type I
A.M. Bagci, S.H. Lee, N. Nagornaya, B.A. Green, N. Alperin
American Journal of Neuroradiology Sep 2013, 34 (9) 1758-1763; DOI: 10.3174/ajnr.A3435
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