Tumor Budding T-cell Graphs: Assessing the Need for Resection in pT1 Colorectal Cancer Patients

Linda Studer, JM Bokhorst, I Nagtegaal, Inti Zlobec, Heather Dawson, Andreas Fischer
Medical Imaging with Deep Learning, PMLR 227:235-259, 2024.

Abstract

Colon resection is often the treatment of choice for colorectal cancer (CRC) patients. However, especially for minimally invasive cancer, such as pT1, simply removing the polyps may be enough to stop cancer progression. Different histopathological risk factors such as tumor grade and invasion depth currently found the basis for the need for colon resection in pT1 CRC patients. Here, we investigate two additional risk factors, tumor budding and lymphocyte infiltration at the invasive front, which are known to be clinically relevant. We capture the spatial layout of tumor buds and T-cells and use graph-based deep learning to investigate them as potential risk predictors. Our pT1 Hotspot Tumor Budding T-cell Graph (pT1-HBTG) dataset consists of 626 tumor budding hotspots from 575 patients. We propose and compare three different graph structures, as well as combinations of the node labels. The best-performing Graph Neural Network architecture is able to increase specificity by 20% compared to the currently recommended risk stratification based on histopathological risk factors, without losing any sensitivity. We believe that using a graph-based analysis can help to assist pathologists in making risk assessments for pT1 CRC patients, and thus decrease the number of patients undergoing potentially unnecessary surgery. Both the code and dataset are made publicly available.

Cite this Paper

BibTeX
@InProceedings{pmlr-v227-studer24a, title = {Tumor Budding T-cell Graphs: Assessing the Need for Resection in pT1 Colorectal Cancer Patients}, author = {Studer, Linda and Bokhorst, JM and Nagtegaal, I and Zlobec, Inti and Dawson, Heather and Fischer, Andreas}, booktitle = {Medical Imaging with Deep Learning}, pages = {235--259}, year = {2024}, editor = {Oguz, Ipek and Noble, Jack and Li, Xiaoxiao and Styner, Martin and Baumgartner, Christian and Rusu, Mirabela and Heinmann, Tobias and Kontos, Despina and Landman, Bennett and Dawant, Benoit}, volume = {227}, series = {Proceedings of Machine Learning Research}, month = {10--12 Jul}, publisher = {PMLR}, pdf = {https://proceedings.mlr.press/v227/studer24a/studer24a.pdf}, url = {https://proceedings.mlr.press/v227/studer24a.html}, abstract = {Colon resection is often the treatment of choice for colorectal cancer (CRC) patients. However, especially for minimally invasive cancer, such as pT1, simply removing the polyps may be enough to stop cancer progression. Different histopathological risk factors such as tumor grade and invasion depth currently found the basis for the need for colon resection in pT1 CRC patients. Here, we investigate two additional risk factors, tumor budding and lymphocyte infiltration at the invasive front, which are known to be clinically relevant. We capture the spatial layout of tumor buds and T-cells and use graph-based deep learning to investigate them as potential risk predictors. Our pT1 Hotspot Tumor Budding T-cell Graph (pT1-HBTG) dataset consists of 626 tumor budding hotspots from 575 patients. We propose and compare three different graph structures, as well as combinations of the node labels. The best-performing Graph Neural Network architecture is able to increase specificity by 20% compared to the currently recommended risk stratification based on histopathological risk factors, without losing any sensitivity. We believe that using a graph-based analysis can help to assist pathologists in making risk assessments for pT1 CRC patients, and thus decrease the number of patients undergoing potentially unnecessary surgery. Both the code and dataset are made publicly available.} }
Endnote
%0 Conference Paper %T Tumor Budding T-cell Graphs: Assessing the Need for Resection in pT1 Colorectal Cancer Patients %A Linda Studer %A JM Bokhorst %A I Nagtegaal %A Inti Zlobec %A Heather Dawson %A Andreas Fischer %B Medical Imaging with Deep Learning %C Proceedings of Machine Learning Research %D 2024 %E Ipek Oguz %E Jack Noble %E Xiaoxiao Li %E Martin Styner %E Christian Baumgartner %E Mirabela Rusu %E Tobias Heinmann %E Despina Kontos %E Bennett Landman %E Benoit Dawant %F pmlr-v227-studer24a %I PMLR %P 235--259 %U https://proceedings.mlr.press/v227/studer24a.html %V 227 %X Colon resection is often the treatment of choice for colorectal cancer (CRC) patients. However, especially for minimally invasive cancer, such as pT1, simply removing the polyps may be enough to stop cancer progression. Different histopathological risk factors such as tumor grade and invasion depth currently found the basis for the need for colon resection in pT1 CRC patients. Here, we investigate two additional risk factors, tumor budding and lymphocyte infiltration at the invasive front, which are known to be clinically relevant. We capture the spatial layout of tumor buds and T-cells and use graph-based deep learning to investigate them as potential risk predictors. Our pT1 Hotspot Tumor Budding T-cell Graph (pT1-HBTG) dataset consists of 626 tumor budding hotspots from 575 patients. We propose and compare three different graph structures, as well as combinations of the node labels. The best-performing Graph Neural Network architecture is able to increase specificity by 20% compared to the currently recommended risk stratification based on histopathological risk factors, without losing any sensitivity. We believe that using a graph-based analysis can help to assist pathologists in making risk assessments for pT1 CRC patients, and thus decrease the number of patients undergoing potentially unnecessary surgery. Both the code and dataset are made publicly available.
APA
Studer, L., Bokhorst, J., Nagtegaal, I., Zlobec, I., Dawson, H. & Fischer, A.. (2024). Tumor Budding T-cell Graphs: Assessing the Need for Resection in pT1 Colorectal Cancer Patients. Medical Imaging with Deep Learning, in Proceedings of Machine Learning Research 227:235-259 Available from https://proceedings.mlr.press/v227/studer24a.html.

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