Projects:QIN:3D Slicer Annotation Image Markup:Use cases

The following is the list of the annotation/markup use cases provided by the QIN groups. Use cases were described using the following template: File:QINUseCaseTemplate.doc

For the use case to be considered complete, it must include:

• textual description, based on the form above
• screenshots of the annotations as they appear in the tool used by the site
• images being annotated
• markup/annotations
• description of how the markup/annotations can be reproduced

Stanford: Liver lesion

Use case incomplete, verbal description only

• Contact: Daniel Rubin
• Image type: liver CT
• Annotation: N/A
• Markup: uni-dimensional measurement
• Tool used: EPAD
• Preprocessing: none

NCI: BreastDx

• Contact: Justin Kirby
• Image type: breast MRI
• Annotation: template-based. Template used for textual annotation: File:NCI BreastDx AIM template.xml
• Markup: uni-dimensional measurement of the lesion.
• Tool used: TCGA ClearCanvas
• Preprocessing: none

MGH: GBM

Use case partially complete, markup not included

• Contact: Jayashree Kalpathy-Cramer
• Images: multi-modal brain MRI
• Annotation: template-based. Template used for textual annotation: File:MGH GBM AIM template.xml
• Markup: binary segmentation of ROI (not included in the use case, not supported by ClearCanvas).
• Tool used for the use case: TCGA ClearCanvas. Other tools used: Slicer, Alice.
• Preprocessing: registration, motion correction, resampling (not included in the provided dataset)

Iowa: Lung

Use case incomplete, verbal description only

• Contact: Milan Sonka
• Images: PET, CT, MRI lungs
• Annotation: yes and no sometimes
• Markup: binary segmentation, unidimensional, bi-dimensional, three-dimensional, 4-dimensional, activity measurement and location
• Tools used: Slicer, Syngo via, Pinnacle, in-house tools

Moffitt: Lung lesion

Use case incomplete, verbal description only. Masks and sample images are available (restricted access)

• Contact: Dmitry Goldgof
• Images: Lung CT
• Annotation: none
• Markup: binary segmentation of ROI
• Tools used: in-house Matlab

Maastro: Lung lesion

• Contact: Andre Dekker
• Images: Lung CT
• Annotations: N/A
• Markup: DICOM RTSTRUCT
• Tools used: RT-specific tools

BWH: Prostate cancer

• Contact: Andrey Fedorov
• Images: Prostate MRI
• Annotations: none
• Markup: binary ROI mask drawn on T2w MRI
• Tools used: Slicer
• Preprocessing: registration of the DCE, DWI, T1w parameters to T2w MRI