PROSTATE-3T
Prostate-3T (Radboud University Nijmegen Medical Centre)
Axial T2-weighted 3T prostate MRI of 64 men from Radboud University Nijmegen Medical Centre, acquired for prostate cancer detection and shared through TCIA for the NCI-ISBI 2013 prostate segmentation challenge, with central gland and peripheral zone masks for 30 cases.
Overview
PROSTATE-3T is a small collection of prostate MRI from Radboud University Nijmegen Medical Centre in the Netherlands, contributed by Geert Litjens, Jurgen Futterer and Henkjan Huisman and published by The Cancer Imaging Archive (TCIA) in 2013. The scans were taken for prostate cancer detection and were released as source images for the NCI-ISBI 2013 challenge on automated segmentation of prostate structures. It is mainly used for prostate gland and zonal segmentation.
Composition
The collection snapshot lists 64 men. The public TCIA metadata service returns 64 patients, each with one study and one axial T2-weighted series, for 1,258 DICOM images in total. Ages recorded in the DICOM headers range from 51 to 78 years (median 64). The download is about 270 MB.
Acquisition
All series are transversal turbo spin echo T2-weighted acquisitions at 3 T. The collection page names a Siemens TrioTim with a pelvic phased-array coil and no endorectal coil. Per the series metadata, 50 series come from a TrioTim and 14 from a Siemens Skyra. In the NCI-ISBI challenge description, slices from this site are 4 mm thick.
Annotations
Two segmentation sets are open downloads on the collection page, both built with MeVisLab. The first holds central gland and peripheral zone masks as NRRD files for 30 cases, the training cases of the NCI-ISBI 2013 challenge. The second holds seminal vesicle and neurovascular bundle masks as MHA files for 15 other cases, prepared for a follow-up challenge that never took place. The challenge's leaderboard and test masks, which mix this collection with PROSTATE-DIAGNOSIS, are distributed separately on the challenge page.
Known limitations
- The Data Access table on the collection page lists 59 subjects and 1,161 images, while the collection snapshot and the metadata service give 64 subjects and 1,258 images.
- Three series have protocol names that mention an endorectal coil (ERC), although the collection summary states a pelvic phased-array coil only.
- No clinical data, pathology, cancer grade or lesion annotations are included.
- Only one sequence is available per patient, with no diffusion or perfusion imaging.
Cohort
Aggregate numbers from the sources below. Bars are relative to the 64 subjects.
Sex
- Male 64 100%
Age
mean 63.5± 6.3 · range 51 to 78Contrast combinations
How many subjects have exactly each set of contrasts.
| T2w | Subjects with exactly this set |
|---|---|
64 |
Modality
subjects
- MRI 64 100%
Contrast / sequence
subjects, values can overlap
- T2-weighted 64 100%
Scanner vendor
subjects
- Siemens Healthineers 64 100%
Field strength
subjects
- 3 T 64 100%
Country
subjects
- Netherlands 64 100%
License and access
Our reading of the license, not legal advice. Before you use the data, read the original license and confirm that your use is allowed. We take no responsibility for how you use a dataset. Full disclaimer
Download without an account
Images download with the TCIA Data Retriever; the two segmentation archives are direct ZIP downloads from the collection page.
Creative Commons Attribution 3.0 Unported
Older version of CC BY. Use, share and adapt the data for any purpose, including commercial use, as long as you credit the creators.
What you can do
- Yes
- Yes
- Yes
- Yes
What you can share
- Yes
- Yes
- Yes
What you must do
- Yes
- Share alike No
- No
- No
- Manuscript review No
- Release code No
- Return results No
- Delete after use No
Limits
- No
- Location limits No
Citation
Litjens G, Futterer J, Huisman H. (2015). Data From Prostate-3T. The Cancer Imaging Archive. https://doi.org/10.7937/K9/TCIA.2015.QJTV5IL5
All numbers
Every number on this page, as stored in stats.csv, with its source.
| Measure | Breakdown | Value | Source |
|---|---|---|---|
| Subjects | total The Data Access table on the same page lists 59 subjects, studies and series and 1,161 images | 64 | tcia-prostate-3t Collection Snapshot |
| Studies | total one study per patient | 64 | tcia-nbia-prostate-3t-studies StudyInstanceUID |
| Scans | total one axial T2-weighted series per patient | 64 | tcia-nbia-prostate-3t-series SeriesInstanceUID |
| Images | total DICOM slices; the Data Access table lists 1,161 | 1,258 | tcia-nbia-prostate-3t-series ImageCount |
| Subjects | sex=male | 64 | tcia-nbia-prostate-3t-studies PatientSex |
| Subjects | modality=MR | 64 | tcia-nbia-prostate-3t-series Modality |
| Subjects | contrast=T2w all protocol names are t2_tse_tra variants | 64 | tcia-nbia-prostate-3t-series ProtocolName |
| Subjects | contrast_set=T2w | 64 | tcia-nbia-prostate-3t-series ProtocolName |
| Subjects | vendor=siemens 50 TrioTim, 14 Skyra (ManufacturerModelName) | 64 | tcia-nbia-prostate-3t-series Manufacturer |
| Subjects | field_strength=3 | 64 | tcia-prostate-3t Summary |
| Subjects | country=NL Radboud University Nijmegen Medical Centre | 64 | tcia-isbi-mr-prostate-2013 Summary |
| Subjects | age=50-59 | 16 | tcia-nbia-prostate-3t-studies PatientAge |
| Subjects | age=60-69 | 37 | tcia-nbia-prostate-3t-studies PatientAge |
| Subjects | age=70-79 | 11 | tcia-nbia-prostate-3t-studies PatientAge |
| Mean age | total | 63.5 | tcia-nbia-prostate-3t-studies PatientAge |
| Age SD | total | 6.3 | tcia-nbia-prostate-3t-studies PatientAge |
| Median age | total | 64 | tcia-nbia-prostate-3t-studies PatientAge |
| Minimum age | total | 51 | tcia-nbia-prostate-3t-studies PatientAge |
| Maximum age | total | 78 | tcia-nbia-prostate-3t-studies PatientAge |
Sources
The keys used in the table above.
- tcia-prostate-3t TCIA Prostate-3T collection page (version 1, updated 2013/05/31) website
- tcia-isbi-mr-prostate-2013 TCIA analysis result page NCI-ISBI 2013 Challenge, Automated Segmentation of Prostate Structures website
- tcia-nbia-prostate-3t-studies TCIA public NBIA API, getPatientStudy for collection Prostate-3T (CC BY 3.0, no login) computed
- tcia-nbia-prostate-3t-series TCIA public NBIA API, getSeries for collection Prostate-3T (CC BY 3.0, no login) computed