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

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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)

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Iowa: Head and Neck cancer

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

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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

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OHSU: Breast cancer

Use case incomplete, verbal description only

• Contact: Fred Loney
• Images: DCE MRI
• Annotations: N/A
• Markup: uni- and bi-dimensional measurements, lesion ROI markup
• Tools used: PACS platform, or in-house-developed Matlab-based software
• Preprocessing: N/A