A Contrastive Learning-based PPC-UNet for Colorectal Histopathology Whole Slide Image Segmentation

Yuxuan Wang, Xuechen Li, Jingxin Liu, Linlin Shen*, Kunming Sun, Suying Wang

*Corresponding author for this work

Research output: Chapter in Book or Report/Conference proceedingConference Proceedingpeer-review

2 Citations (Scopus)

Abstract

Colorectal cancer (CRC) is the third most common cancer and is usually diagnosed using colonoscopy and biopsy. Diagnosis of pathological biopsy requires professional knowledge and technology. Computer-aided gland and lesion segmentation systems have been proposed to help pathologists in diagnosis of CRC. However, to the best of our knowledge, there has not been a literature work trying to segment different levels of intraepithelial neoplasia in CRC pathological image. To reduce such a research gap, in this paper, we firstly collect a colorectal cancer biopsy histopathology whole slide image (WSI) dataset, named Histo-CRC Biopsy dataset, for algorithm evaluation. We further propose a PPC-UNet network to segment high level, low level intraepithelial neoplasia and normal tissues. The proposed PPC-UNet consists of two modules i.e., a UNet-based network for segmentation, and a pixel-to-propagation consistency (PPC) contrastive learning-based network for UNet encoder pre-training. As the important feature can be learned from the unannotated data during pre-training, our approach can consistently improve the Dice of UNet by around 2% when different ratios of the training data are labeled.

Original languageEnglish
Title of host publicationProceedings - 2021 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2021
EditorsYufei Huang, Lukasz Kurgan, Feng Luo, Xiaohua Tony Hu, Yidong Chen, Edward Dougherty, Andrzej Kloczkowski, Yaohang Li
PublisherInstitute of Electrical and Electronics Engineers Inc.
Pages2072-2079
Number of pages8
ISBN (Electronic)9781665401265
DOIs
Publication statusPublished - 2021
Event2021 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2021 - Virtual, Online, United States
Duration: 9 Dec 202112 Dec 2021

Publication series

NameProceedings - 2021 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2021

Conference

Conference2021 IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2021
Country/TerritoryUnited States
CityVirtual, Online
Period9/12/2112/12/21

Keywords

  • Contrastive learning
  • colorectal cancer
  • deep learning
  • medical image
  • whole slide image segmentation

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