Detailed Description | |
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Modalities | CT MR Clinical Data Image Analyses (segmentations) | Number of Patients | 347 | Number of Studies | 348 | Number of Series | ~4 sets of MRI scan data per case | Number of Images | | Images Size (GB) | |
For more information:
The database for this challenge will contain a total of approximately 350 MRI cases, each from a single examination from a distinct patient. Approximately 60% of the cases will serve as the training set, and the remaining 40% of the cases will serve as the test set, with each case consisting of four sets of MRI scan data: two sets of T2-weighted images (transaxial and sagittal; DICOM format), Ktrans images (computed from dynamic contrast-enhanced (DCE) images; mhd format), and apparent diffusion coefficient (ADC) images (computed from diffusion-weighted (DWI) imaging; DICOM format). Each case will contain at least one prostate lesion with biopsy-proven malignancy status or with imaging findings with sufficiently low suspicion of clinical significance. Lesion location (along with a reference thumbnail image of the lesion) will be provided as this is not a detection task. Gleason scores and PI-RADS scores will not be released with this challenge, since they will become the focus of a follow-up challenge to be held in conjunction with the 2017 AAPM Annual Meeting in July 2017. Nodule locations and diagnoses Prostate MR in accordance with ACR PIRADS2.0 comprises at least 3 types of images or parameters that should be jointly analyzed for the assessment of prostate cancer. The prostate MR imaging was performed at the Radboud University Medical Centre (Radboudumc) in the Prostate MR Reference Center under supervision of prof. dr. Barentsz. The Radboudumc is located in Nijmegen, The Netherlands. The dataset was collected and curated for research in computer aided diagnosis of prostate MR under supervision of dr. Huisman, Radboudumc as documented in: G. Litjens, O. Debats, J. Barentsz, N. Karssemeijer and H. Huisman. "Computer-aided detection of prostate cancer in MRI", IEEE Transactions on Medical Imaging 2014;33:1083-1092. If you use this data for research than refer the above publication. The images come in two encodings. The acquired MR is provided in DICOM encoding. Additionally Ktrans images are provided. They come in mhd format. Ktrans is a key pharmacokinetic parameter computed from the available Dynamic contrast enhanced T1-weighted series. Each patient has one study with several DICOM images and one Ktrans image. The Ktrans image is encoded in two files ProstateX-[ProxID]-Ktrans.[mhd/zraw], where ProxID is the ProstateX patient identifier. The DICOM images comprise several Series each comprising several Instances. The DICOM files are documented in the ProstateX-Images.csv file. The columns in that file encode the following: ProxID – ProstateX patient identifier. Name – Series Description Studydate – Study Date fid – Finding ID Pos – Scanner Coordinate position of the finding WorldMatrix – Matrix describing image orientation and scaling ijk – image col,row,slice coordinate of finding ImageUID – Image Identifier TopLevel 0 - Series forms one image 1 – A set of Series forms a 4D image (e.g. Dynamic MR) NA – Series form one image, but is part of a Level 1 4D image
SpacingBetweenSlices – Scalar Spacing between slices VoxelSpacing – Vector with x,y,z spacing scalars Dim – Vector with 4D dimensions of the image DCMSerDescr – The original DICOM Series Description DCMSerUID – The DICOM Series UID DCMSerNum – The DICOM Series Number InstanceUIDList – DICOM Instances that make up this series ImageUIDList – TopLevel-NA Images the make up this Toplevel 1 image
For example, to get the ADC image of Patient ProstateX-0123 do the following. After you imported the DICOM files into your environment, goto patient ProstateX-0123 and find the series with ADC in it. In this case it is ‘ep2d_diff_tra_DYNDIST_ADC’. It has SeriesNumber 8. The DICOM images in that series form the ADC image for this challenge. Image slice j at coordinate i,j contains a finding fid. See findings for more details. FindingsThe findings are documented in the ProstateX-Findings.csv table. Documentation for the columns in that table is as follows: pos - Scanner Coordinate position of the finding ClinSig – Identifier available in training set that identifies whether this is a clinically significant finding. Either the biopsy GleasonScore was 7 or higher. Findings with a PIRADS score 2 were not biopsied and are not considered clinically significant. In our center the occurrence of clinically significant cancer in PIRADS 2 lesions is less than 5%. - CalibrationSet_NoduleData.xlsx - Nodule locations and diagnoses
- TestSet_NoduleData.xlsx - Nodule locations; diagnoses to be added after manuscript publication
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