High Resolution Prostate Segmentations for the ProstateX-Challenge

Description

Abstract: We created 66 high resolution segmentations for randomly chosen T2-weighted volumes of the ProstateX challenge. The high resolution segmentations were obtained by considering the three scan directions: for each scan direction (axial, sagittal, coronal), the gland was manually delineated by a medical student, followed by a review and corrections of an expert urologist. These three anisotropic segmentations were fused to one isotropic segmentation by means of shape-based interpolation in the following manner: (1) The signed distance transformation of the three segmentations is computed. (2) The anisotropic distance volumes are transformed into an isotropic high-resolution representation with linear interpolation. (3) By averaging the distances, smoothing and thresholding them at zero, we obtained the fused segmentation. The resulting segmentations were manually verified and corrected further by the expert urologist if necessary. Serving as ground truth for training CNNs, these segmentations have the potential to improve the segmentation accuracy of automated algorithms. By considering not only the axial scans but also sagittal and coronal scan directions, we aimed to have higher fidelity of the segmentations especially at the apex and base regions of the prostate.

For a research project about automatic high resolution prostate segmentation, our medical partners created manually 66 ground truth segmentations of the following TCIA collection: https://wiki.cancerimagingarchive.net/display/Public/SPIE-AAPM-NCI+PROSTATEx+Challenges

The segmentations were created by considering the axial, coronal and sagittal T2 weighted scans and have isotropic resolution.

The segmentations to standard DICOM representation were created with dcmqi.

Special Instructions: Please do not list this data before the publication of our research paper. This may take a few months. After publication of the manuscript, we’d like to include the paper’s reference into the dataset description if possible.

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Note:  Please contact help@cancerimagingarchive.net  with any questions regarding usage.

• Source Image Data (DICOM) - (275 images, 1.0GB) 
  • UID List.txt 
  • Click the Download button above to save a ".tcia" manifest file to your computer, which you must open with the NBIA Data Retriever.  
• Annotations - Link to analyzed segmentation files?
• Publications