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Lesions and tumours, segmentation

Soft-tissue-Sarcoma

T2-weighted fat-saturated or STIR MR of a soft-tissue sarcoma of the extremities before treatment, the tumour and any visible oedema around it drawn slice by slice by an expert radiation oncologist (Soft-tissue-Sarcoma, TCIA).

10 test caseslimbsimage MR
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  • Cohort. 51 patients with a soft-tissue sarcoma of the extremities, none metastatic or recurrent, on clinical protocols that differ, 12 at the McGill University Health Centre and 39 at an outside institution; most tumours lie in the thigh. The contours were drawn on a T2-weighted fat-saturated series (26 patients) or a STIR (25).
  • Images. The series the expert drew on, as read: scanner values on scales that differ (maxima of 406 to 5091 on the 20 built), its own grid and plane, slices 4 to 7 mm thick with gaps of 1 to 2 mm. Most are axial; STS_011 is sagittal and STS_023 coronal. The T1 MR and the PET/CT are not given. No mask.
  • Truth. One expert radiation oncologist drew GTV_Mass on all 51 patients and, on the 32 with visible oedema, GTV_Edema, the tumour with its oedema. One reader, no measure of agreement: graded expert.
  • Labels. 1 is GTV_Mass, 2 what GTV_Edema adds to it, absent on the 19 patients without visible oedema (test cases STS_008, STS_035, STS_043). The oedema is scored as a structure of its own, with the tumour's weight. A label a case lacks is not scored unless a method writes it, a false positive at 0.
  • Sizes. On the ten test cases the tumour holds 27 to 751 ml (median 262) over 7 to 29 slices, and the oedema, on the seven that have one, 2.4 to 254 ml (median 119).
  • Room. Test masks moved by one voxel in plane keep a mean Dice of 0.98 for the tumour and 0.94 for the oedema, by one slice 0.87 and 0.54, the thick slices weighing on the oedema. The surface Dice is at 1 mm, the provider setting no tolerance.
  • Outside numbers. None on these cases as scored here: Neubauer et al. 2020 cropped and resampled the leg tumours and do not say which contour they scored. The contours are public: a network trained on this collection may have seen these patients.
  • Overlap. No other dataset of the corpus holds these patients. The collection's T1 MR and PET/CT are screened for registration and synthesis, and SAROS labels some of its CTs: a dataset built from them leaves out these 20 test and development patients.
  • Side. For STS_036 (development) the spreadsheet's 'right groin' contradicts the MR header and the CT, where the tumour lies on the patient's left. No label has a side, so no score depends on it.
  • Checks. On the 20 built, each label map holds only 0 to 2 on its image's grid, and the contours lie on the mass and on the bright tissue around it.

No method has a result on every case of this dataset yet.

Case by case

Click a score to look at that result: the image, the truth in green and the method's map in red. Underlined scores have their image; for the others you see the case without the result.

About the data

The first test case of Soft-tissue-Sarcoma
The first test caseClick to look at every case.
Test cases
10 test patients drawn with seed 2026 among the 41 outside development, by sequence in proportion: five T2-weighted fat-saturated, five STIR. 10 development patients, the last of the same seeded order. All 51 patients have the expert's contours.
Truth
contours by experts the dataset's two contours, drawn slice by slice on the T2-weighted fat-saturated or STIR MR by an expert radiation oncologist: 1 the tumour without the visible oedema around it (GTV_Mass), 2 the oedema, what the contour of the tumour with that oedema (GTV_Edema, drawn for the 32 patients with visible oedema) adds to it
Licence
CC BY 3.0
10 cases for tuning, never tested

STS_011, STS_018, STS_003, STS_038, STS_004, STS_036, STS_040, STS_028, STS_023, STS_033