Colon cancer survival prediction from gland shapes within histology slides using deep learning

Gedeon, Rawan and Nagar, Atulya (2025) Colon cancer survival prediction from gland shapes within histology slides using deep learning. Journal of Integrative Bioinformatics, 22 (2). ISSN 1613-4516

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Abstract

This study investigates the application of deep learning techniques for segmenting glands in histopathological images of colorectal cancer. We trained two convolutional neural network models, U-Net and DCAN, on a combination of the GlaS and CRAG datasets to enhance generalization across diverse histological appearances, selecting DCAN for its superior accuracy in delineating gland boundaries. The goal was to achieve robust gland segmentation applicable to whole slide images (WSIs) from The Cancer Genome Atlas (TCGA). Using the segmented glands, we extracted patient-level morphological features and used them to predict survival outcomes. A Cox proportional hazards model was trained on these features and achieved a high concordance index, indicating strong predictive performance. Patients were then stratified into high- and low-risk groups, with significant differences in survival distributions (log-rank <i>p</i>-value: 0.01317). In addition, we benchmarked our models against state-of-the-art gland segmentation methods on GlaS and CRAG, highlighting the trade-off between domain-specific accuracy and cross-dataset robustness.

Item Type:	Article
Additional Information and Comments:	Open Access. © 2025 the author(s), published by De Gruyter. This work is licensed under the Creative Commons Attribution 4.0 International License.
Keywords:	deep learning; gland segmentation; colorectal cancer; survival analysis; TCGA; morphological features
Faculty / Department:	Faculty of Human and Digital Sciences > School of Computer Science and the Environment
SWORD Depositor:	RISE Symplectic
Depositing User:	RISE Symplectic
Date Deposited:	06 Mar 2026 10:15
Last Modified:	06 Mar 2026 10:15
URI:	https://hira.hope.ac.uk/id/eprint/4870

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