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Lesions and tumours, segmentation

FUMPE, pulmonary embolism

A CT pulmonary angiogram of a patient with pulmonary embolism in Mashhad, Iran, with the emboli outlined by a radiologist (FUMPE).

10 test caseslungimage CT
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Read before comparing (6)
  • Pool. 35 patients with pulmonary embolism, scanned on NeuViz 16 CTs at the Emam-Reza and Ghaem medical centres, Mashhad. PAT024 and PAT032 are held out: their masks are empty.
  • Images. Each patient's DICOM series as SimpleITK reads it, in Hounsfield units (-1024 to 3071), 0.55 to 0.79 mm in plane, slices 0.5 to 1 mm apart. PAT031's files run head to foot; prepare.py orders its slices and its mask's by position. No mask is given.
  • Truth. A radiologist delineated the emboli on every slice, a semi-automatic tool refining the outlines, and a second radiologist re-examined them; no agreement is published. Graded expert. The masks read 17 to 133 HU on average a case, as clots in contrast-filled arteries do.
  • Cases. The test emboli hold 0.5 to 62 mL (median 7.1 mL) in 1 to 19 pieces; most lie in peripheral arteries, so small pieces weigh on the Dice.
  • Start. Over the 10 test cases a whole-image mask scores a Dice of 0.0005 at the median, an Otsu mask 0.0012.
  • Overlap. No other dataset of the corpus names FUMPE, Mashhad or the collection; Mashhad's NeuViz 16 scans are other patients than those of any other set.

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

Test cases
10 test patients drawn with seed 2026 among the 33 with a mask, then 10 development patients, the last of the same seeded order. One examination a patient; the provider gives no centre a patient, so no strata, and publishes no split.
Truth
contours by experts the emboli, drawn slice by slice by a radiologist with the help of a semi-automatic tool and re-examined by a second radiologist (Masoudi et al. 2018)
Licence
CC BY 4.0
10 cases for tuning, never tested

PAT034, PAT033, PAT015, PAT029, PAT019, PAT018, PAT009, PAT028, PAT017, PAT020