The NA-MIC Kit: ITK, VTK, Pipelines, Grids and 3D Slicer as An Open Platform for the Medical Image Computing Community

Pieper, Steven; Lorensen, Bill; Schroeder, W. J.; Kikinis, Ron

doi:10.1109/isbi.2006.1625012

Cited by 207 publications

(184 citation statements)

References 3 publications

Supporting

Mentioning

182

Contrasting

Order By: Relevance

“…Averaged CT images were produced by averaging the cine CT images of the same sections. MR images were rigidly registered to the averaged CT images using 3D Slicer [26]. A radiologist with 8 years of experience delineated the entire contrastenhancing lesion (CEL) and the entire non-enhancing lesion (NEL).…”

Section: Image Analysismentioning

confidence: 99%

Survival prediction in high-grade gliomas using CT perfusion imaging

Yeung

Wang

et al. 2015

J Neurooncol

View full text Add to dashboard Cite

Patients with high-grade gliomas usually have heterogeneous response to surgery and chemoirradiation. The objectives of this study were (1) to evaluate serial changes in tumor volume and perfusion imaging parameters and (2) to determine the value of these data in predicting overall survival (OS). Twenty-nine patients with World Health Organization grades III and IV gliomas underwent magnetic resonance (MR) and computed tomography (CT) perfusion examinations before surgery, and 1, 3, 6, 9, and 12 months after radiotherapy. Serial measurements of tumor volumes and perfusion parameters were evaluated by receiver operating characteristic analysis, Cox proportional hazards regression, and Kaplan-Meier survival analysis to determine their values in predicting OS. Higher trends in blood flow (BF), blood volume (BV), and permeability-surface area product in the contrast-enhancing lesions (CEL) and the non-enhancing lesions (NEL) were found in patients with OS \ 18 months compared to those with OS C 18 months, and these values were significant at selected time points (P \ 0.05). Only CT perfusion parameters yielded sensitivities and specificities of C70 % in predicting 18 and 24 months OS. Pre-surgery BF in the NEL and BV in the CEL and NEL 3 months after radiotherapy had sensitivities and specificities [80 % in predicting 24 months OS in patients with grade IV gliomas. Our study indicated that CT perfusion parameters were predictive of survival and could be useful in assessing early response and in selecting adjuvant treatment to prolong survival if verified in a larger cohort of patients.

show abstract

Section: Image Analysismentioning

confidence: 99%

Survival prediction in high-grade gliomas using CT perfusion imaging

Yeung

Wang

et al. 2015

J Neurooncol

View full text Add to dashboard Cite

show abstract

“…All tumor segmentations were done using 3D Slicer software, version 4.1 (Brigham and Women's Hospital, Boston, Mass) 22,23 by an investigator (R.R.) who was blinded to clinical outcomes.…”

Section: Tumor Segmentation and Volume Estimationmentioning

confidence: 99%

Recurrent glioblastoma: Volumetric assessment and stratification of patient survival with early posttreatment magnetic resonance imaging in patients treated with bevacizumab

Huang

Rahman

Hamdan

et al. 2013

Cancer

View full text Add to dashboard Cite

BACKGROUND: Despite a high radiographic response rate in patients with recurrent glioblastoma following bevacizumab therapy, survival benefit has been relatively modest. We assess whether tumor volume measurements based on baseline and early posttreatment MRI can stratify patients in terms of progression-free survival (PFS) and overall survival (OS). METHODS: Baseline (24 1/-4 days) and posttreatment (30 1/-6 days) MRI exams of 91 patients with recurrent glioblastoma treated with bevacizumab were retrospectively evaluated for volume of enhancing tumor as well as volume of the T2/FLAIR hyperintensity. Overall survival (OS) and progression-free survival (PFS) were assessed using volume parameters in a Cox regression model adjusted for significant clinical parameters. RESULTS: In univariable analysis, residual tumor volume, percentage change in tumor volume, steroid change from baseline to posttreatment scan, and number of recurrences were associated with both OS and PFS. With dichotomization by sample median of 52% change of enhancing volume can stratify OS (52 weeks vs. 31 weeks, P 5.013) and PFS (21 weeks vs. 12 weeks, P 5.009). Residual enhancing volume, dichotomized by sample median of 7.8 cm 3 , can also stratify for OS (64 weeks vs. 28 weeks, P <.001) and PFS (21 weeks vs. 12 weeks, P 5.036). CONCLUSIONS: Volumetric percentage change and absolute early posttreatment volume of enhancing tumor can stratify survival for patients with recurrent glioblastoma receiving bevacizumab therapy. Cancer 2013;119:3479-88.

show abstract

“…Images were acquired with an in-plane resolution of 1.0 mm 2 , with slice thicknesses of 1.0, 1.5, 2.0, 3.0, 4.0, and 5.0 mm to determine the effect of slice thickness on quantification accuracy and precision. Images were analyzed using a fully automated segmentation tool in 3D Slicer developed in-house specifically for volumetric assessment of the lateral ventricles (8). The tool was developed using the Insight Segmentation and Registration Toolkit and the results were visualized in 3D Slicer.…”

Section: Validation Of Ventricle Segmentation Softwarementioning

confidence: 99%

“…Such programs include Freesurfer, Amira (Visage Imaging, Inc., San Diego, CA) and 3D Slicer (7,8). Measurement of ventricular volume is particularly amenable to segmentation due to the high signal intensity contrast between CSF and surrounding brain tissue in T 1 -weighted MRI.…”

mentioning

confidence: 99%

A novel MRI‐compatible brain ventricle phantom for validation of segmentation and volumetry methods

Khan

Drozd

Moreland

et al. 2012

Magnetic Resonance Imaging

View full text Add to dashboard Cite

and the Alzheimer's Disease Neuroimaging InitiativePurpose: To create a standardized, MRI-compatible, lifesized phantom of the brain ventricles to evaluate ventricle segmentation methods using T 1 -weighted MRI. An objective phantom is needed to test the many different segmentation programs currently used to measure ventricle volumes in patients with Alzheimer's disease. Materials and Methods:A ventricle model was constructed from polycarbonate using a digital mesh of the ventricles created from the 3 Tesla (T) MRI of a subject with Alzheimer's disease. The ventricle was placed in a brain mold and surrounded with material composed of 2% agar in water, 0.01% NaCl and 0.0375 mM gadopentetate dimeglumine to match the signal intensity properties of brain tissue in 3T T 1 -weighted MRI. The 3T T 1 -weighted images of the phantom were acquired and ventricle segmentation software was used to measure ventricle volume. Results:The images acquired of the phantom successfully replicated in vivo signal intensity differences between the ventricle and surrounding tissue in T 1 -weighted images and were robust to segmentation. The ventricle volume was quantified to 99% accuracy at 1-mm voxel size. Conclusion:The phantom represents a simple, realistic and objective method to test the accuracy of lateral ventricle segmentation methods and we project it can be extended to other anatomical structures.

show abstract

The NA-MIC Kit: ITK, VTK, Pipelines, Grids and 3D Slicer as An Open Platform for the Medical Image Computing Community

Cited by 207 publications

References 3 publications

Survival prediction in high-grade gliomas using CT perfusion imaging

Survival prediction in high-grade gliomas using CT perfusion imaging

Recurrent glioblastoma: Volumetric assessment and stratification of patient survival with early posttreatment magnetic resonance imaging in patients treated with bevacizumab

A novel MRI‐compatible brain ventricle phantom for validation of segmentation and volumetry methods

Contact Info

Product

Resources

About