DOI: 10.5281/zenodo.5827695
title: Labeled Images for Ulcerative Colitis (LIMUC) Dataset

description: Dataset Details

The LIMUC dataset compromises 11276 images from 564 patients and 1043 colonoscopy procedures, who underwent colonoscopy for ulcerative colitis between December 2011 and July 2019 at the Department of Gastroenterology in Marmara University School of Medicine. Two experienced gastroenterologists blindly reviewed and classified all images according to the Mayo endoscopic score (MES). Images that were differently labeled by two reviewers were also labeled by a third experienced reviewer independently without seeing their previous labels. The final MES for differently labeled images was determined using majority voting.

Mayo 0: 6105 (54.14%)Mayo 1: 3052 (27.70%)Mayo 2: 1254 (11.12%)Mayo 3: 865 (7.67%)

patient_based_classified_images: Images of each patient are separated according to Mayo classes. If a train-val-test splitting is to be made according to the ratios desired by the user, this folder should be used.

train_and_validation_sets: Train and validation sets used in the research paper. Using the scripts in dataset's GitHub repository, same 10-fold can be generated for replicating the results.

test_set: Test set used for performance measurement in the research paper. For a fair performance comparisons, this should be used to report performances.

Suggested Metrics

Since there are imbalances and ordinality among classes (Mayo-0, Mayo-1, Mayo-2, Mayo-3), quadratic weighted kappa (QWK) can be used as the main performance metric. The QWK is one of the commonly used statistics for the assessment of agreement on an ordinal scale and it is one of the best singular performance metrics for this problem regarding class imbalances. Mean absolute error (MAE), macro F1 score, or macro accuracy can be used as alternative performance metrics.

LIMUC Code Repository

Many scripts for preprocessing, splitting, training, and validating the dataset are provided in this GitHub repository.

Terms and Conditions

The LIMUC dataset is licensed under the Creative Commons Attribution 4.0 International (CC BY 4.0) license. This license permits unrestricted use, distribution, and reproduction in any medium, provided that proper attribution is given to the original creators. This ensures that the dataset can be used for both research and commercial applications while maintaining transparency and acknowledgment of the below studies.

@article{10.1093/ibd/izac226,    author = {Polat,, Gorkem and Kani, Haluk Tarik and Ergenc, Ilkay and Ozen Alahdab, Yesim and Temizel, Alptekin and Atug, Ozlen},    title = {Improving the Computer-Aided Estimation of Ulcerative Colitis Severity According to Mayo Endoscopic Score by Using Regression-Based Deep Learning},    journal = {Inflammatory Bowel Diseases},    volume = {29},    number = {9},    pages = {1431-1439},    year = {2022},    month = {11},    issn = {1078-0998},    doi = {10.1093/ibd/izac226},    url = {https://doi.org/10.1093/ibd/izac226},}

@InProceedings{10.1007/978-3-031-12053-4_12,    author="Polat, Gorkem and Ergenc, Ilkay and Kani, Haluk Tarik and Alahdab, Yesim Ozen and Atug, Ozlen and Temizel, Alptekin",    title="Class Distance Weighted Cross-Entropy Loss for Ulcerative Colitis Severity Estimation",    booktitle="Medical Image Understanding and Analysis",    year="2022",    publisher="Springer International Publishing",    pages="157--171",}

 

For more details about the license, please refer to: Creative Commons Attribution 4.0 International License.

Regarding the questions, please contact polatgorkem@gmail.com.