fidoptMSD Colon
Portal venous CT of the abdomen of a patient before the resection of a primary colon cancer at Memorial Sloan Kettering Cancer Center, with the tumour segmented (Medical Segmentation Decathlon, Task10 Colon).
12 test casesabdomenimage CT
Read before comparing (7)
- Protocols. Many scans were made elsewhere and sent with the patient, so protocols vary widely: several makers and contrast agents, 100 to 140 kVp, slices 3 to 5 mm apart on the 23 cases. The data paper's table calls the scans non-contrast, its text portal venous; on colon_029 the aorta reads 243 HU and the portal vein 179 HU.
- Images. The decathlon's files as delivered, in Hounsfield units, values below -1024 set to -1024 by the provider.
- Truth. The primary tumour only, drawn by hand in ITK-SNAP by an expert radiologist in body imaging, one reader a scan with no second reading. The tumours hold 1.2 to 468 ml over the pool (median 22 ml) and 1.2 to 118 ml on the test cases, four of them under 5 ml, where a voxel more or less moves the Dice.
- Overlap. colon_041 is voxel for voxel spleen_32, a development case of MSD_Spleen. Two of the task's test scans, not used, are spleen training scans voxel for voxel: colon_067 is spleen_59, a test case of MSD_Spleen, and colon_071 is spleen_60. No case built shares its slice count and pixel size with an image of the corpus.
- Exposure. The test cases are decathlon training cases, public with their labels: a network trained on the decathlon's colon task, as the challenge's entries were, has seen them.
- Checks. Every label map holds 0 and 1 on its image's grid. TotalSegmentator on colon_029 puts 82% of the tumour inside its colon and all of it within about 5 voxels.
- Outside numbers. None: the challenge ranks entries on its hidden test set, where the 19 entries' mean Dice ran from 0.05 to 0.56 (median 0.16; nnU-Net 0.56), its lowest task. Its clinicians accepted a 4 mm surface error on this task: the surface Dice here is at 4 mm.
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 caseClick to look at every case.
- Test cases
- 12 test cases drawn with seed 2026 among the 114 training cases outside development, and 11 development cases, from a pool of 125. colon_041, a scan of the spleen task, is left out. The labels of the decathlon's 64 test scans were never released.
- Truth
- contours by experts the primary colon cancer (label 1), the decathlon's mask, drawn by hand in ITK-SNAP by an expert radiologist in body imaging
- Source
- medicaldecathlon.com
arxiv.org/abs/1902.09063
doi.org/10.1038/s41467-022-30695-9
msd-for-monai.s3-us-west-2.amazonaws.com/Task10_Colon.tar - Licence
- CC BY-SA 4.0
11 cases for tuning, never tested
colon_216, colon_099, colon_024, colon_054, colon_032, colon_203, colon_163, colon_077, colon_187, colon_196, colon_111