Fully Automated Enhanced Tumor Compartmentalization: Man vs. Machine Reloaded.

Porz, Nicole; Habegger, Simon; Meier, Raphael; Verma, Rajeev Kumar; Jilch, Astrid; Fichtner, Jens; Knecht, Urspeter; Radina, Christian; Schucht, Philippe; Beck, Jürgen; Raabe, Andreas; Slotboom, Johannes; Reyes, Mauricio; Wiest, Roland (2016). Fully Automated Enhanced Tumor Compartmentalization: Man vs. Machine Reloaded. PLoS ONE, 11(11), e0165302. Public Library of Science 10.1371/journal.pone.0165302

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Comparison of a fully-automated segmentation method that uses compartmental volume information to a semi-automatic user-guided and FDA-approved segmentation technique.


Nineteen patients with a recently diagnosed and histologically confirmed glioblastoma (GBM) were included and MR images were acquired with a 1.5 T MR scanner. Manual segmentation for volumetric analyses was performed using the open source software 3D Slicer version (www.slicer.org). Semi-automatic segmentation was done by four independent neurosurgeons and neuroradiologists using the computer-assisted segmentation tool SmartBrush® (referred to as SB), a semi-automatic user-guided and FDA-approved tumor-outlining program that uses contour expansion. Fully automatic segmentations were performed with the Brain Tumor Image Analysis (BraTumIA, referred to as BT) software. We compared manual (ground truth, referred to as GT), computer-assisted (SB) and fully-automated (BT) segmentations with regard to: (1) products of two maximum diameters for 2D measurements, (2) the Dice coefficient, (3) the positive predictive value, (4) the sensitivity and (5) the volume error.


Segmentations by the four expert raters resulted in a mean Dice coefficient between 0.72 and 0.77 using SB. BT achieved a mean Dice coefficient of 0.68. Significant differences were found for intermodal (BT vs. SB) and for intramodal (four SB expert raters) performances. The BT and SB segmentations of the contrast-enhancing volumes achieved a high correlation with the GT. Pearson correlation was 0.8 for BT; however, there were a few discrepancies between raters (BT and SB 1 only). Additional non-enhancing tumor tissue extending the SB volumes was found with BT in 16/19 cases. The clinically motivated sum of products of diameters measure (SPD) revealed neither significant intermodal nor intramodal variations. The analysis time for the four expert raters was faster (1 minute and 47 seconds to 3 minutes and 39 seconds) than with BT (5 minutes).


BT and SB provide comparable segmentation results in a clinical setting. SB provided similar SPD measures to BT and GT, but differed in the volume analysis in one of the four clinical raters. A major strength of BT may its independence from human interactions, it can thus be employed to handle large datasets and to associate tumor volumes with clinical and/or molecular datasets ("-omics") as well as for clinical analyses of brain tumor compartment volumes as baseline outcome parameters. Due to its multi-compartment segmentation it may provide information about GBM subcompartment compositions that may be subjected to clinical studies to investigate the delineation of the target volumes for adjuvant therapies in the future.

Item Type:

Journal Article (Original Article)


04 Faculty of Medicine > Department of Radiology, Neuroradiology and Nuclear Medicine (DRNN) > Institute of Diagnostic and Interventional Neuroradiology
04 Faculty of Medicine > Pre-clinic Human Medicine > Institute for Surgical Technology & Biomechanics ISTB [discontinued]
04 Faculty of Medicine > Department of Head Organs and Neurology (DKNS) > Clinic of Neurosurgery

UniBE Contributor:

Porz, Nicole, Habegger, Simon, Meier, Raphael, Verma, Rajeev Kumar, Jilch, Astrid, Fichtner, Jens, Knecht, Urspeter, Schucht, Philippe, Beck, Jürgen, Raabe, Andreas, Slotboom, Johannes, Reyes, Mauricio, Wiest, Roland Gerhard Rudi


600 Technology > 610 Medicine & health
500 Science > 570 Life sciences; biology




Public Library of Science




Martin Zbinden

Date Deposited:

16 Dec 2016 16:13

Last Modified:

02 Mar 2023 23:28

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