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Semi-supervised Semantic Segmentation of Multiple Lumbosacral Structures on CT

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Computational Methods and Clinical Applications for Spine Imaging (CSI 2019)

Abstract

Labeled data is scarce in clinical practice, and labeling 3D medical data is time-consuming. The study aims to develop a deep learning network with a few labeled data and investigate its segmentation performance of lumbosacral structures on thin-layer computed tomography (CT). In this work, semi-cGAN and fewshot-GAN were developed for automatic segmentation of nerve, bone, and disc, compared with 3D U-Net. For evaluation, dice score and average symmetric surface distance are used to assess the segmentation performance of lumbosacral structures. Another dataset from SpineWeb was also included to test the generalization ability of the two trained networks. Research results show that the segmentation performance of semi-cGAN and fewshot-GAN is slightly superior to 3D U-Net for automatic segmenting lumbosacral structures on thin-layer CT with fewer labeled data.

H. Liu and H. Xiao—These two authors equally contribute to the study.

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References

  1. Kochanski, R.B., Lombardi, J.M., Laratta, J.L., Lehman, R.A., O’Toole, J.E.: Image-guided navigation and robotics in spine surgery. Neurosurgery 84, 1179–1189 (2019)

    Article  Google Scholar 

  2. Ronneberger, O., Fischer, P., Brox, T.: U-Net: convolutional networks for biomedical image segmentation. In: Navab, N., Hornegger, J., Wells, William M., Frangi, Alejandro F. (eds.) MICCAI 2015. LNCS, vol. 9351, pp. 234–241. Springer, Cham (2015). https://doi.org/10.1007/978-3-319-24574-4_28

    Chapter  Google Scholar 

  3. Çiçek, Ö., Abdulkadir, A., Lienkamp, S.S., Brox, T., Ronneberger, O.: 3D U-Net: learning dense volumetric segmentation from sparse annotation. In: Ourselin, S., Joskowicz, L., Sabuncu, M.R., Unal, G., Wells, W. (eds.) MICCAI 2016. LNCS, vol. 9901, pp. 424–432. Springer, Cham (2016). https://doi.org/10.1007/978-3-319-46723-8_49

    Chapter  Google Scholar 

  4. Wang, C., Macgillivray, T., Macnaught, G., Yang, G., Newby, D.: A two-stage 3D Unet framework for multi-class segmentation on full resolution image (2018)

    Google Scholar 

  5. Funke, J., et al.: Large scale image segmentation with structured loss based deep learning for connectome reconstruction. IEEE Trans. Pattern Anal. Mach. Intell. 41, 1669–1680 (2018)

    Article  Google Scholar 

  6. Norman, B., Pedoia, V., Majumdar, S.: Use of 2D U-Net convolutional neural networks for automated cartilage and meniscus segmentation of knee MR imaging data to determine relaxometry and morphometry. Radiology 288, 177–185 (2018)

    Article  Google Scholar 

  7. Weston, A.D., et al.: Automated abdominal segmentation of CT scans for body composition analysis using deep learning. Radiology 290, 669–679 (2019)

    Article  Google Scholar 

  8. Huang, Q., Sun, J., Ding, H., Wang, X., Wang, G.: Robust liver vessel extraction using 3D U-Net with variant dice loss function. Comput. Biol. Med. 101, 153–162 (2018)

    Article  Google Scholar 

  9. Dong, X., et al.: Automatic multi-organ segmentation in thorax CT images using U-Net-GAN. Med. Phys. 46, 2157–2168 (2019)

    Article  Google Scholar 

  10. Wu, J.J., Zhang, C.K., Xue, T.F., Freeman, W.T., Tenenbaum, J.B.: Learning a probabilistic latent space of object shapes via 3D generative-adversarial modeling. In: Advances in Neural Information Processing Systems, vol. 29 (2016)

    Google Scholar 

  11. Ibragimov, B., Likar, B., Pernuš, F., Vrtovec, T.: Shape representation for efficient landmark-based segmentation in 3-D. IEEE Trans. Med. Imaging 33, 861–874 (2014)

    Article  Google Scholar 

  12. Chen, D., et al.: Deep learning and alternative learning strategies for retrospective real-world clinical data. Npj Digit. Med. 2, 43 (2019)

    Article  Google Scholar 

  13. Retter, F., Plant, C., Burgeth, B., Botella, G., Schlossbauer, T., Meyer-Bäse, A.: Computer-aided diagnosis for diagnostically challenging breast lesions in DCE-MRI based on image registration and integration of morphologic and dynamic characteristics. EURASIP J. Adv. Sig. Process. 2013, 157 (2013)

    Google Scholar 

  14. Pan, S.J., Yang, Q.A.: A survey on transfer learning. IEEE Trans. Knowl. Data Eng. 22, 1345–1359 (2010)

    Article  Google Scholar 

  15. Bai, W., et al.: Semi-supervised learning for network-based cardiac MR image segmentation. In: Descoteaux, M., Maier-Hein, L., Franz, A., Jannin, P., Collins, D.L., Duchesne, S. (eds.) MICCAI 2017. LNCS, vol. 10434, pp. 253–260. Springer, Cham (2017). https://doi.org/10.1007/978-3-319-66185-8_29

    Chapter  Google Scholar 

  16. Li, X., Yu, L., Chen, H., Fu, C.-W., Heng, P.-A.: Transformation consistent self-ensembling model for semi-supervised medical image segmentation (2019)

    Google Scholar 

  17. Papandreou, G., Chen, L.C., Murphy, K.P., Yuille, A.L.: Weakly- and semi-supervised learning of a deep convolutional network for semantic image segmentation. In: IEEE International Conference on Computer Vision, pp. 1742–1750 (2015)

    Google Scholar 

  18. Kazeminia, S., et al.: GANs for medical image analysis (2018)

    Google Scholar 

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Acknowledgement

We would like to thanks William M. Wells in Brigham and Women’s Hospital, Harvard Medical School for the guidance of this project.

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Correspondence to Shisheng He or Guoxin Fan .

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Liu, H. et al. (2020). Semi-supervised Semantic Segmentation of Multiple Lumbosacral Structures on CT. In: Cai, Y., Wang, L., Audette, M., Zheng, G., Li, S. (eds) Computational Methods and Clinical Applications for Spine Imaging. CSI 2019. Lecture Notes in Computer Science(), vol 11963. Springer, Cham. https://doi.org/10.1007/978-3-030-39752-4_5

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  • DOI: https://doi.org/10.1007/978-3-030-39752-4_5

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