Skip to main content

H\(^2\)NF-Net for Brain Tumor Segmentation Using Multimodal MR Imaging: 2nd Place Solution to BraTS Challenge 2020 Segmentation Task

  • Conference paper
  • First Online:
Book cover Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries (BrainLes 2020)

Part of the book series: Lecture Notes in Computer Science ((LNIP,volume 12659))

Included in the following conference series:

Abstract

In this paper, we propose a Hybrid High-resolution and Non-local Feature Network (H\(^2\)NF-Net) to segment brain tumor in multimodal MR images. Our H\(^2\)NF-Net uses the single and cascaded HNF-Nets to segment different brain tumor sub-regions and combines the predictions together as the final segmentation. We trained and evaluated our model on the Multimodal Brain Tumor Segmentation Challenge (BraTS) 2020 dataset. The results on the test set show that the combination of the single and cascaded models achieved average Dice scores of 0.78751, 0.91290, and 0.85461, as well as Hausdorff distances (\(95\%\)) of 26.57525, 4.18426, and 4.97162 for the enhancing tumor, whole tumor, and tumor core, respectively. Our method won the second place in the BraTS 2020 challenge segmentation task out of nearly 80 participants.

This is a preview of subscription content, log in via an institution to check access.

Access this chapter

Chapter
USD 29.95
Price excludes VAT (USA)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
USD 89.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 119.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info

Tax calculation will be finalised at checkout

Purchases are for personal use only

Institutional subscriptions

References

  1. Bakas, S., Akbari, H., Sotiras, A., et al.: Segmentation labels for the pre-operative scans of the TCGA-GBM collection (2017)

    Google Scholar 

  2. Bakas, S., et al.: Segmentation labels and radiomic features for the pre-operative scans of the TCGA-LGG collection. Cancer Imaging Arch. 286 (2017)

    Google Scholar 

  3. Bakas, S., et al.: Advancing the cancer genome atlas glioma MRI collections with expert segmentation labels and radiomic features. Sci. Data 4, 170117 (2017)

    Article  Google Scholar 

  4. Bakas, S., et al.: Identifying the best machine learning algorithms for brain tumor segmentation, progression assessment, and overall survival prediction in the BRATS challenge. arXiv preprint arXiv:1811.02629 (2018)

  5. Fu, J., et al.: Dual attention network for scene segmentation. In: Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition, pp. 3146–3154 (2019)

    Google Scholar 

  6. Isensee, F., Kickingereder, P., Wick, W., Bendszus, M., Maier-Hein, K.H.: No new-net. In: Crimi, A., Bakas, S., Kuijf, H., Keyvan, F., Reyes, M., van Walsum, T. (eds.) BrainLes 2018. LNCS, vol. 11384, pp. 234–244. Springer, Cham (2019). https://doi.org/10.1007/978-3-030-11726-9_21

    Chapter  Google Scholar 

  7. Jia, H., Xia, Y., Cai, W., Huang, H.: Learning high-resolution and efficient non-local features for brain glioma segmentation in MR images. In: Martel, A.L., Abolmaesumi, P., Stoyanov, D., Mateus, D., Zuluaga, M.A., Zhou, S.K., Racoceanu, D., Joskowicz, L. (eds.) MICCAI 2020. LNCS, vol. 12264, pp. 480–490. Springer, Cham (2020). https://doi.org/10.1007/978-3-030-59719-1_47

    Chapter  Google Scholar 

  8. Jiang, Z., Ding, C., Liu, M., Tao, D.: Two-stage cascaded U-Net: 1st place solution to BraTS challenge 2019 segmentation task. In: Crimi, A., Bakas, S. (eds.) BrainLes 2019. LNCS, vol. 11992, pp. 231–241. Springer, Cham (2020). https://doi.org/10.1007/978-3-030-46640-4_22

    Chapter  Google Scholar 

  9. Kamnitsas, K., et al.: Efficient multi-scale 3D CNN with fully connected CRF for accurate brain lesion segmentation. Med. Image Anal. 36, 61–78 (2017)

    Article  Google Scholar 

  10. Li, X., Zhong, Z., Wu, J., Yang, Y., Lin, Z., Liu, H.: Expectation-maximization attention networks for semantic segmentation. In: Proceedings of the IEEE International Conference on Computer Vision, pp. 9167–9176 (2019)

    Google Scholar 

  11. Menze, B.H., et al.: The multimodal brain tumor image segmentation benchmark (BRATS). IEEE Trans. Med. Imaging 34(10), 1993–2024 (2014)

    Article  Google Scholar 

  12. Myronenko, A.: 3D MRI brain tumor segmentation using autoencoder regularization. In: Crimi, A., Bakas, S., Kuijf, H., Keyvan, F., Reyes, M., van Walsum, T. (eds.) BrainLes 2018. LNCS, vol. 11384, pp. 311–320. Springer, Cham (2019). https://doi.org/10.1007/978-3-030-11726-9_28

    Chapter  Google Scholar 

  13. Pohlen, T., Hermans, A., Mathias, M., Leibe, B.: Full-resolution residual networks for semantic segmentation in street scenes. In: Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition, pp. 4151–4160 (2017)

    Google Scholar 

  14. Saxena, S., Verbeek, J.: Convolutional neural fabrics. In: Advances in Neural Information Processing Systems, pp. 4053–4061 (2016)

    Google Scholar 

  15. Sudre, C.H., Li, W., Vercauteren, T., Ourselin, S., Jorge Cardoso, M.: Generalised dice overlap as a deep learning loss function for highly unbalanced segmentations. In: Cardoso, M.J., et al. (eds.) DLMIA/ML-CDS-2017. LNCS, vol. 10553, pp. 240–248. Springer, Cham (2017). https://doi.org/10.1007/978-3-319-67558-9_28

    Chapter  Google Scholar 

  16. Sun, K., et al.: High-resolution representations for labeling pixels and regions. arXiv preprint arXiv:1904.04514 (2019)

  17. Wang, X., Girshick, R., Gupta, A., He, K.: Non-local neural networks. In: Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition, pp. 7794–7803 (2018)

    Google Scholar 

  18. Wu, Y., Xia, Y., Song, Y., Zhang, Y., Cai, W.: Multiscale network followed network model for retinal vessel segmentation. In: Frangi, A.F., Schnabel, J.A., Davatzikos, C., Alberola-López, C., Fichtinger, G. (eds.) MICCAI 2018. LNCS, vol. 11071, pp. 119–126. Springer, Cham (2018). https://doi.org/10.1007/978-3-030-00934-2_14

    Chapter  Google Scholar 

  19. Zhao, H., et al.: Psanet: point-wise spatial attention network for scene parsing. In: Proceedings of the European Conference on Computer Vision (ECCV), pp. 267–283 (2018)

    Google Scholar 

Download references

Acknowledgement

Haozhe Jia and Yong Xia were partially supported by the Science and Technology Innovation Committee of Shenzhen Municipality, China under Grant JCYJ20180306171334997, the National Natural Science Foundation of China under Grant 61771397, and the Innovation Foundation for Doctor Dissertation of Northwestern Polytechnical University under Grant CX202042. The authors would like to appreciate the efforts devoted to collect and share the BraTS 2020 dataset.

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Yong Xia .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2021 Springer Nature Switzerland AG

About this paper

Check for updates. Verify currency and authenticity via CrossMark

Cite this paper

Jia, H., Cai, W., Huang, H., Xia, Y. (2021). H\(^2\)NF-Net for Brain Tumor Segmentation Using Multimodal MR Imaging: 2nd Place Solution to BraTS Challenge 2020 Segmentation Task. In: Crimi, A., Bakas, S. (eds) Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries. BrainLes 2020. Lecture Notes in Computer Science(), vol 12659. Springer, Cham. https://doi.org/10.1007/978-3-030-72087-2_6

Download citation

  • DOI: https://doi.org/10.1007/978-3-030-72087-2_6

  • Published:

  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-030-72086-5

  • Online ISBN: 978-3-030-72087-2

  • eBook Packages: Computer ScienceComputer Science (R0)

Publish with us

Policies and ethics