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Ultrasound Segmentation Using a 2D UNet with Bayesian Volumetric Support

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Lesion Segmentation in Surgical and Diagnostic Applications (CuRIOUS 2022, KiPA 2022, MELA 2022)

Abstract

We present a novel 2D segmentation neural network design for the segmentation of tumour tissue in intraoperative ultrasound (iUS). Due to issues with brain shift and tissue deformation, pre-operative imaging for tumour resection has limited reliability within the operating room (OR). iUS serves as a tool for improving tumour localisation and boundary delineation. Our proposed method takes inspiration from Bayesian networks. Rather than using a conventional 3D UNet, we develop a technique which samples from the volume around the query slice, and perform multiple segmentation’s which provides volumetric support to improve the accuracy of the segmentation of the query slice. Our results show that our proposed architecture achieves an 0.04 increase in the validation dice score compared to the benchmark network.

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References

  1. Dixon, L., Lim, A., Grech-Sollars, M., Nandi, D., Camp, S.J.: Intraoperative ultrasound in brain tumor surgery: a review and implementation guide. Neurosurg. Rev. 45, 1–13 (2022)

    Article  Google Scholar 

  2. Bastos, D.C.A., et al.: Challenges and opportunities of intraoperative 3d ultrasound with neuronavigation in relation to intraoperative MRI. Front. Oncol. 11, 656519 (2021)

    Article  Google Scholar 

  3. Menze, B.H., et al.: The multimodal brain tumor image segmentation benchmark (brats). IEEE Trans. Med. Imaging 34, 1993–2024 (2015)

    Article  Google Scholar 

  4. Antonelli, M., et al.: The medical segmentation decathlon. Nat. Commun. 13, 4128 (2022)

    Article  Google Scholar 

  5. Heller, N., et al.: The state of the art in kidney and kidney tumor segmentation in contrast-enhanced CT imaging: results of the kits19 challenge. Med. Image Anal. 67, 101821 (2020)

    Article  Google Scholar 

  6. Lundervold, A.S., Lundervold, A.: An overview of deep learning in medical imaging focusing on MRI. Z. Med. Phys. 29(2), 102–127 (2019)

    Article  Google Scholar 

  7. Ronneberger, O., Fischer, P., Brox, T.: U-net: Convolutional networks for biomedical image segmentation. arXiv:1505.04597 (2015)

  8. Canalini, L., Klein, J., Miller, D., Kikinis, R.: Enhanced registration of ultrasound volumes by segmentation of resection cavity in neurosurgical procedures. Int. J. Comput. Assist. Radiol. Surg. 15, 1963–1974 (2020)

    Article  Google Scholar 

  9. Canalini, L., et al.: Segmentation-based registration of ultrasound volumes for glioma resection in image-guided neurosurgery. Int. J. Comput. Assist. Radiol. Surg. 14, 1697–1713 (2019)

    Article  Google Scholar 

  10. Zhong, X., et al.: Deep action learning enables robust 3d segmentation of body organs in various CT and MRI images. Sci. Rep. 11, 3311 (2021)

    Article  Google Scholar 

  11. Gal, Y., Ghahramani, Z.: Dropout as a Bayesian approximation: representing model uncertainty in deep learning. arXiv:1506.02142 (2016)

  12. Xiao, Y., Fortin, M., Unsgård, G., Rivaz, H., Reinertsen, I.: Retrospective evaluation of cerebral tumors (resect): a clinical database of pre-operative MRI and intra-operative ultrasound in low-grade glioma surgeries. Med. Phys. 44(7), 3875–3882 (2017)

    Article  Google Scholar 

  13. Paszke, A., et al.: Pytorch: an imperative style, high-performance deep learning library. In: Advances in Neural Information Processing Systems, vol. 32, pp. 8024–8035. Curran Associates Inc. (2019). https://papers.neurips.cc/paper/9015-pytorch-an-imperative-style-high-performance-deep-learning-library.pdf

  14. Kingma, D.P., Ba, J.: Adam: A method for stochastic optimization. CoRR abs/1412.6980 (2015)

    Google Scholar 

  15. Pérez-García, F., Sparks, R., Ourselin, S.: TorchIO: a python library for efficient loading, preprocessing, augmentation and patch-based sampling of medical images in deep learning. Comput. Methods Progr. Biomed. 208, 106236 (2021)

    Article  Google Scholar 

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Acknowledgements

This project was supported by UK Research and Innovation (UKRI) Centre for Doctoral Training in AI for Healthcare (EP/S023283/1).

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Correspondence to Alistair Weld or Arjun Agrawal .

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Weld, A., Agrawal, A., Giannarou, S. (2023). Ultrasound Segmentation Using a 2D UNet with Bayesian Volumetric Support. In: Xiao, Y., Yang, G., Song, S. (eds) Lesion Segmentation in Surgical and Diagnostic Applications. CuRIOUS KiPA MELA 2022 2022 2022. Lecture Notes in Computer Science, vol 13648. Springer, Cham. https://doi.org/10.1007/978-3-031-27324-7_8

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  • DOI: https://doi.org/10.1007/978-3-031-27324-7_8

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  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-031-27323-0

  • Online ISBN: 978-3-031-27324-7

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