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  • NCI-ISBI 2013 Challenge - Automated Segmentation of Prostate Structures

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UPDATE: Information below is retained for historical purposes. Artifacts of the challenge, including the ground truth for the leaderboard and test data, are available through the following digital object identifier: http://dx.doi.org/10.7937/K9/TCIA.2015.zF0vlOPv.

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  1. Each case is ~ 3 to 10MB so you'll need to have ~600MB free on your machine.
  2. In order to obtain the DICOM images please login to TCIA (or register for a free account).  
  3. Having logged on, go to the left side-bar to click on the link "search shared list".  
    1. The Shared List Name to search for is: "ISBI Prostate Challenge - Training". 
    2. Then click the "Submit" box at the lower right-hand part of the screen.
    3. Click the blue underlined link titled ISBI Prostate Challenge - Training to open the Shared List. 
    4. For additional help with searching for shared lists please refer to section 3.7.3 in the TCIA User's Guide or contact the TCIA Helpdesk at 314-747-4254 help@cancerimagingarchive.net .
  4. Next click the blue Download Manager link.
    1. Be sure to note the Browse box at the top of the next screen to choose a suitable folder location on your machine to receive the downloaded DCM cases. 
    2. Then click the start button at the bottom arrow of the screen picture below to start the download.
    3. Wait until all of the progress bars reach 100%. A message will appear at the bottom of the Download Manager window indicating when the data is completely finished downloading.
    4. For additional help with using the Download Manager please refer to section 3.8 in the TCIA User's Guide or contact the TCIA Helpdesk at 314-747-4254 help@cancerimagingarchive.net.

There will be 60 cases, each consisting of 15+ (4 mm thick slices at 3T) or 28+ (3 mm thick at 1.5T) adjacent axial cross-section cuts. Half of them were obtained at 1.5 T (Philips Achieva) with an endo-rectal receiver coil (fromBostonMedicalCenterfrom Boston Medical Center) and the other half at 3T (Siemens TIM) with a surface coil (from Radboud University Nijmegen Medical Centre [RUNMC],Netherlands). They were acquired as T2-weighted MR axial pulse sequences. Each file contains nearly all DICOM acquisition parameters except tags that specifically identify Private Health Information. 

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  1. In order to obtain the DICOM images please login to TCIA (or register for a free account).  
  2. Having logged on, go to the left side-bar to click on search shared list.  
    1. The Shared List Name to search for is: "ISBI Prostate Challenge - Leader Board". 
    2. Then click the Submit box at the lower right-hand part of the screen.
    3. Click the blue underlined link titled ISBI Prostate Challenge - Leader Board to open the Shared List. 
    4. For additional help with searching for shared lists please refer to section 3.7.3 in the TCIA User's Guide or contact the TCIA Helpdesk at 314-747-4254 help@cancerimagingarchive.net.
  3. Next click the blue Download Manager link.
    1. Be sure to note the Browse box at the top of the next screen to choose a suitable folder location on your machine to receive the downloaded DCM cases. 
    2. Then click the start button at the bottom arrow of the screen picture below to start the download.
    3. Wait until all of the progress bars reach 100%.  A message will appear at the bottom of the Download Manager window indicating when the data is completely finished downloading.
    4. For additional help with using the Download Manager please refer to section 3.8 in the TCIA User's Guide or contact the TCIA Helpdesk at 314-747-4254Helpdesk at help@cancerimagingarchive.net.

Please note that no NRRD segmentations will be available for download for these leaderboard cases until after the conclusion of the challenge.

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For a comprehensive background on the prostate, its anatomy, imaging and clinical observations see the following publications:

Committee and publications that promote a PI-RADS reporting standard:

For healthcare context of a sample MRI case as reported by a radiologist see linked report on training case ProstateDx-01-0001:

Questions about the structure and conduct of the Challenge please contact:

Questions about the TCIA image archive and downloading procedures please review the The Cancer Imaging Archive User's Guide or contact:

Questions about 3D Slicer and .nrrd file structure contact:

Questions about how Kitware designed its scoring software called MIDAS see below attached document link:


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Contacts

Keyvan Farahani, PhD;   National Cancer Institute, NIH; (farahani@nih.gov)
Justin Kirby, BS; SAIC-Frederick; (kirbyju@mail.nih.gov)
Anant Madabhushi, PhD; Case Western Reserve University; (anant.madabhushi@case.edu)
Henkjan Huisman, PhD; Radboud University, The Netherlands; (H.Huisman@rad.umcn.nl)
Andinet Enquobahrie, PhD; Kitware Inc (andinet.enqu@kitware.com)

Organizers

Keyvan Farahani, NCI
Carl Jaffe, Boston University
Nicholas Bloch, Boston University
Anant Madabhushi, Case Western Reserve University
Henkjan Huisman, Radboud University Nijmegen Medical Centre
John Freymann, SAIC-Frederick
Justin Kirby, SAIC-Frederick
Andinet Enquobahrie, Kitware Inc.
Larry Clarke, NCI



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