Skip to main content

Sparse Representation Label Fusion Method Combining Pixel Grayscale Weight for Brain MR Segmentation

  • Conference paper
  • First Online:
Medical Imaging and Computer-Aided Diagnosis (MICAD 2020)

Part of the book series: Lecture Notes in Electrical Engineering ((LNEE,volume 633))

Abstract

Multi-atlas based segmentation (MAS) methods have demonstrated superior performance in the field of automatic image segmentation, and label fusion is an important part of MAS methods. In this paper, we propose a sparse representation label fusion (SRLF) method combining pixel grayscale weight. We adopt a strategy for solving sparse coefficients multiple times and introduce pixel grayscale weight information in the label fusion process. In order to verify the segmentation performance, we apply the proposed method to segment subcutaneous tissues in 3D brain MR images of the challenging publicly available IBSR datasets. The results show that our method effectively improves the defects of SRLF method and achieves higher segmentation accuracy. We also compared our methods with commonly used automatic segmentation tools and state-of-the-art methods, and the average Dice similarity coefficient (Dsc) of the subcutaneous tissues obtained by our method was significantly higher than that of the automatic segmentation tools and state-of-the-art methods.

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 169.00
Price excludes VAT (USA)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
USD 219.99
Price excludes VAT (USA)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free shipping worldwide - see info
Hardcover Book
USD 219.99
Price excludes VAT (USA)
  • Durable hardcover 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

Similar content being viewed by others

References

  1. Fischl, B.: Freesurfer. Neuroimage 62(2), 774–781 (2012)

    Article  Google Scholar 

  2. Patenaude, B., Smith, S.M., Kennedy, D.N., Jenkinson, M.: A Bayesian model of shape and appearance for subcortical brain segmentation. NeuroImage 56(3), 907–922 (2011)

    Article  Google Scholar 

  3. Sandra, G., et al.: A review on brain structures segmentation in magnetic resonance imaging. Artif. Intell. Med. 73, 45–69 (2016)

    Article  Google Scholar 

  4. Wang, M., Li, P.: A review of deformation models in medical image registration. J. Med. Biol. Eng. 39(1), 1–17 (2018)

    Article  Google Scholar 

  5. Collins, D.L., Pruessner, J.C.: Towards accurate, automatic segmentation of the hippocampus and amygdala from MRI by augmenting ANIMAL with a template library and label fusion. NeuroImage 52(4), 1355–1366 (2010)

    Article  Google Scholar 

  6. Isgum, I., et al.: Multi-atlas-based segmentation with local decision fusion-application to cardiac and aortic segmentation in CT scans. IEEE Trans. Med. Imaging 28(7), 1000–1010 (2009)

    Article  Google Scholar 

  7. Sabuncu, M.R., et al.: A generative model for image segmentation based on label fusion. IEEE Trans. Med. Imaging 29(10), 1714–1729 (2010)

    Article  Google Scholar 

  8. Nie, J., Shen, D.: Automated segmentation of mouse brain images using multi-atlas multi-ROI deformation and label fusion. Neuroinformatics 11(1), 35–45 (2013)

    Article  Google Scholar 

  9. Lin, X.B., Li, X.X., Guo, D.M.: Registration error and intensity similarity based label fusion for segmentation. IRBM 40(2), 78–85 (2019)

    Article  Google Scholar 

  10. Sanroma, G., et al.: A transversal approach for patch-based label fusion via matrix completion. Med. Image Anal. 24(1), 135–148 (2015)

    Article  Google Scholar 

  11. Rousseau, F., Habas, P.A., Studholme, C.: A supervised patch-based approach for human brain labeling. IEEE Trans. Med. Imaging 30(10), 1852–1862 (2011)

    Article  Google Scholar 

  12. Bai, W., et al.: Multi-atlas segmentation with augmented features for cardiac MR images. Med. Image Anal. 19(1), 98–109 (2015)

    Article  Google Scholar 

  13. Roy, S., et al.: Subject-specific sparse dictionary learning for atlas-based brain MRI segmentation. IEEE J. Biomed. Health Inform. 19(5), 1598–1609 (2015)

    Article  Google Scholar 

  14. Tong, Y., et al.: Segmentation of MR images via discriminative dictionary learning and sparse coding: application to hippocampus labeling. NeuroImage 76(1), 11–23 (2013)

    Article  Google Scholar 

  15. Lee, J., Kim, S.J., Chen, R., Herskovits, E.H.: Brain tumor image segmentation using kernel dictionary learning. In: Proceedings of 37th Annual International Conference, pp. 658–661. IEEE EMBC, Milan (2015)

    Google Scholar 

  16. Liu, Y., Wei, Y., Wang, C.: Subcortical brain segmentation based on atlas registration and linearized kernel sparse representative classifier. IEEE Access 7, 31547–31557 (2019)

    Article  Google Scholar 

  17. Zikic, D., Glocker, B., Criminisi, A.: Encoding atlases by randomized classification forests for efficient multi-atlas label propagation. Med. Image Anal. 18(9), 1262–1273 (2014)

    Article  Google Scholar 

  18. Moeskops, P., et al.: Automatic segmentation of MR brain images with a convolutional neural network. IEEE Trans. Med. Imaging 35(5), 1252–1261 (2016)

    Article  Google Scholar 

  19. Kaisar, K., et al.: Automated sub-cortical brain structure segmentation combining spatial and deep convolutional features. Med. Image Anal. 48, 177–186 (2018)

    Article  Google Scholar 

  20. IBSR Homepage. https://www.nitrc.org/projects/ibsr. Accessed 6 Nov 2019

  21. SuperElastix Homepage. https://github.com/SuperElastix/. Accessed 6 Nov 2019

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to Monan Wang .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2020 Springer Nature Singapore Pte Ltd.

About this paper

Check for updates. Verify currency and authenticity via CrossMark

Cite this paper

Li, P., Wang, M. (2020). Sparse Representation Label Fusion Method Combining Pixel Grayscale Weight for Brain MR Segmentation. In: Su, R., Liu, H. (eds) Medical Imaging and Computer-Aided Diagnosis. MICAD 2020. Lecture Notes in Electrical Engineering, vol 633. Springer, Singapore. https://doi.org/10.1007/978-981-15-5199-4_2

Download citation

  • DOI: https://doi.org/10.1007/978-981-15-5199-4_2

  • Published:

  • Publisher Name: Springer, Singapore

  • Print ISBN: 978-981-15-5198-7

  • Online ISBN: 978-981-15-5199-4

  • eBook Packages: EngineeringEngineering (R0)

Publish with us

Policies and ethics