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Hierarchical Graph Pathomic Network for Progression Free Survival Prediction

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Medical Image Computing and Computer Assisted Intervention – MICCAI 2021 (MICCAI 2021)

Abstract

High resolution histology images contain information related to disease prognosis. However, survival prediction based on current clinical grading systems, which rely heavily on a pathologist’s histological assessment, has significant limitations due to the heterogeneity and complexity of tissue phenotypes. To address these challenges, we propose a deep learning framework that leverages hierarchical graph-based representations to enable more precise prediction of progression-free survival in prostate cancer patients. Unlike conventional approaches that analyze patch-based or cell-based pathomic features alone without considering their spatial connectivity, we explore multi-scale topological structures of whole slide images in an integrative context. Extensive experiments have demonstrated the effectiveness of our model for better progression prediction.

Z. Wang and J. Li—Contributed equally to this work.

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References

  1. Siegel, R.L., Miller, K.D., Jemal, A.: Cancer statistics, 2019. CA Cancer J. Clin. 69(1), 7–34 (2019)

    Google Scholar 

  2. Epstein, J.I., et al.: A contemporary prostate cancer grading system: a validated alternative to the Gleason score. Euro. Urol. 69(3), 428–435 (2016)

    Google Scholar 

  3. Chandramouli, S., et al.: Computer extracted features from initial H&E tissue biopsies predict disease progression for prostate cancer patients on active surveillance. Cancers 12(9), 2708 (2020)

    Google Scholar 

  4. Leo, P., et al.: Computerized histomorphometric features of glandular architecture predict risk of biochemical recurrence following radical prostatectomy: a multisite study (2019)

    Google Scholar 

  5. Cheng, L., et al.: Nuclear shape and orientation features from H&E images predict survival in early-stage estrogen receptor-positive breast cancers. Lab. Invest. 98(11), 1438–1448 (2018)

    Article  Google Scholar 

  6. Zhao, Y., et al.: Predicting lymph node metastasis using histopathological images based on multiple instance learning with deep graph convolution. In: Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition, pp. 4837–4846 (2020)

    Google Scholar 

  7. Li, R., Yao, J., Zhu, X., Li, Y., Huang, J.: Graph CNN for survival analysis on whole slide pathological images. In: Frangi, A.F., Schnabel, J.A., Davatzikos, C., Alberola-López, C., Fichtinger, G. (eds.) MICCAI 2018. LNCS, vol. 11071, pp. 174–182. Springer, Cham (2018). https://doi.org/10.1007/978-3-030-00934-2_20

    Chapter  Google Scholar 

  8. Adnan, M., Kalra, S., Tizhoosh, H.R.: Representation learning of histopathology images using graph neural networks. In: Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition Workshops, pp. 988–989 (2020)

    Google Scholar 

  9. Ding, K., Liu, Q., Lee, E., Zhou, M., Lu, A., Zhang, S.: Feature-enhanced graph networks for genetic mutational prediction using histopathological images in colon cancer. In: Martel, A.L., et al. (eds.) MICCAI 2020. LNCS, vol. 12262, pp. 294–304. Springer, Cham (2020). https://doi.org/10.1007/978-3-030-59713-9_29

    Chapter  Google Scholar 

  10. Zhou, Y., Graham, S., Koohbanani, N.A., Shaban, M., Heng, P.-H., Rajpoot, N.: CGC-net: cell graph convolutional network for grading of colorectal cancer histology images. In: Proceedings of the IEEE/CVF International Conference on Computer Vision Workshops (2019)

    Google Scholar 

  11. Wang, J., Chen, R.J., Lu, M.Y., Baras, A., Mahmood, F.: Weakly supervised prostate TMA classification via graph convolutional networks. In: 2020 IEEE 17th International Symposium on Biomedical Imaging (ISBI), pp. 239–243. IEEE (2020)

    Google Scholar 

  12. Chen, R.J., et al.: Pathomic fusion: an integrated framework for fusing histopathology and genomic features for cancer diagnosis and prognosis. IEEE Trans. Med. Imaging (2020)

    Google Scholar 

  13. Li, J., et al.: A multi-resolution model for histopathology image classification and localization with multiple instance learning. In: Computers in Biology and Medicine, p. 104253 (2021)

    Google Scholar 

  14. He, K., Gkioxari, G., Dollár, P., Girshick, R.: Mask R-CNN. In: Proceedings of the IEEE International Conference on Computer Vision, pp. 2961–2969 (2017)

    Google Scholar 

  15. Kumar, N., et al.: A multi-organ nucleus segmentation challenge. IEEE Trans. Med. Imaging 39(5), 1380–1391 (2019)

    Google Scholar 

  16. Veličković, P., Cucurull, G., Casanova, A., Romero, A., Lio, P., Bengio, Y.: Graph attention networks. arXiv preprint arXiv:1710.10903 (2017)

  17. Lee, J., Lee, I., Kang, J.: Self-attention graph pooling. In: International Conference on Machine Learning, pp. 3734–3743. PMLR (2019)

    Google Scholar 

  18. Li, Y., Tarlow, D., Brockschmidt, M., Zemel, R.: Gated graph sequence neural networks. arXiv preprint arXiv:1511.05493 (2015)

  19. Katzman, J.L., Shaham, U., Cloninger, A., Bates, J., Jiang, T., Kluger, Y.: Deep survival: a deep cox proportional hazards network. Stat 1050(2) (2016)

    Google Scholar 

  20. Hu, W., et al.: Strategies for pre-training graph neural networks. arXiv preprint arXiv:1905.12265 (2019)

  21. Qiu, J., et al.: GCC: graph contrastive coding for graph neural network pre-training. In: Proceedings of the 26th ACM SIGKDD International Conference on Knowledge Discovery & Data Mining, pp. 1150–1160 (2020)

    Google Scholar 

  22. He, K., Fan, H., Wu, Y., Xie, S., Girshick, R.: Momentum contrast for unsupervised visual representation learning. In: Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition, pp. 9729–9738 (2020)

    Google Scholar 

  23. Ing, N., et al.: Semantic segmentation for prostate cancer grading by convolutional neural networks. In: Medical Imaging 2018: Digital Pathology, vol. 10581, pp. 105811B. International Society for Optics and Photonics (2018)

    Google Scholar 

  24. Liu, J., et al.: An integrated TCGA pan-cancer clinical data resource to drive high-quality survival outcome analytics. Cell 173(2), 400–416 (2018)

    Google Scholar 

  25. Van Griethuysen, J.J.M., et al.: Computational radiomics system to decode the radiographic phenotype. Cancer Res. 77(21), e104–e107 (2017)

    Google Scholar 

  26. Davidson-Pilon, C., et al.: Camdavidsonpilon/lifelines: v0. 24.15. Zenodo (2020)

    Google Scholar 

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Correspondence to Corey W. Arnold .

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Wang, Z. et al. (2021). Hierarchical Graph Pathomic Network for Progression Free Survival Prediction. In: de Bruijne, M., et al. Medical Image Computing and Computer Assisted Intervention – MICCAI 2021. MICCAI 2021. Lecture Notes in Computer Science(), vol 12908. Springer, Cham. https://doi.org/10.1007/978-3-030-87237-3_22

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  • DOI: https://doi.org/10.1007/978-3-030-87237-3_22

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  • Online ISBN: 978-3-030-87237-3

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