Data Description

181 confocal images from 30 patients and 50 different sites are made available from a previous clinical trial conducted at the Gastroenterology and Liver Services of the Bankstown-Lidcombe Hospital (Sydney, Australia).
Subjects of that study were recruited with known CD, suspected CD, and controls. Each patients underwent a confocal gastroscopy (Pentax EC-3870FK, Pentax, Tokyo, (Japan) under conscious sedation and with a IV-aliquots of fluorescein sodium and topical acriflavine hydrochloride to enhance images. CLE images and forceps biopsies of the same sites were taken sequentially at standardized locations at 5 small intestinal sites. Small intestinal specimens were taken precisely matched to the CLE imaging sites and were assessed by 2 experienced blinded histopathologists independently and subsequently reviewed during a single session for internal consistency.

Each image is classified has showing a normal mucosa, villous atrophy or crypt hypertrophy, as increase severity of coeliac disease damage to the intestinal mucosa.

The data has been divide into a training set (60% of the imaged site) and test set (40% of the imaged site).

Each file in the training set is named as train_imagenumber_diagnosis_site, where:

  • imagenumber: is a consecutive code number for the images
  • diagnosis: can be NR (normal mucosa), VA (mucosa showing villous atrophy), CH (mucosa showing crypt hypertophy), VACH (mucosa showing both villous atrophy and crypt hypertrophy)
  • site: the unique code identifying a patient and imaging site 

R. Leong, N. Nguyen, C. Meredith and et al., "In Vivo Confocal Endomicroscopy in the Diagnosis and Evaluation of
Celiac Disease
," Gastroenterology, vol. 135, no. 6, pp. 1870-6, 2008.
E. Grisan, H. Mirzaei and R Leong, “Computer-assisted automated image recognition of celiac disease using confocal endomicroscopy.”, ISBI 2014
D. Boschetto, H. Mirzaei,, R Leong and E. Grisan: “Semiautomatic detection of villi in confocal endoscopy for the evaluation of celiac disease”, EMBC 2015
D. Boschetto, H. Mirzaei,, R Leong and E. Grisan: “Detection and Density Estimation of Goblet Cells in Confocal Endoscopy for the Evaluation of Celiac Disease”, EMBC 2015