BInGo: Bayesian Intrinsic Groupwise Registration via Explicit Hierarchical Disentanglement

  • Conference paper
  • First Online:
Information Processing in Medical Imaging (IPMI 2023)

Abstract

Multimodal groupwise registration aligns internal structures in a group of medical images. Current approaches to this problem involve develo** similarity measures over the joint intensity profile of all images, which may be computationally prohibitive for large image groups and unstable under various conditions. To tackle these issues, we propose BInGo, a general unsupervised hierarchical Bayesian framework based on deep learning, to learn intrinsic structural representations to measure the similarity of multimodal images. Particularly, a variational auto-encoder with a novel posterior is proposed, which facilitates the disentanglement learning of structural representations and spatial transformations, and characterizes the imaging process from the common structure with shape transition and appearance variation. Notably, BInGo is scalable to learn from small groups, whereas being tested for large-scale groupwise registration, thus significantly reducing computational costs. We compared BInGo with five iterative or deep-learning methods on three public intrasubject and intersubject datasets, i.e. BraTS, MS-CMR of the heart, and Learn2Reg abdomen MR-CT, and demonstrated its superior accuracy and computational efficiency, even for very large group sizes (e.g., over 1300 2D images from MS-CMR in each group).

X. Wang and X. Luo—Equal Contribution.

This work was funded by the National Natural Science Foundation of China (grant No. 61971142 and 62111530195) and Fujian Provincial Natural Science Foundation project (2021J02019).

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

Access this chapter

Subscribe and save

Springer+ Basic
EUR 32.99 /Month
  • Get 10 units per month
  • Download Article/Chapter or Ebook
  • 1 Unit = 1 Article or 1 Chapter
  • Cancel anytime
Subscribe now

Buy Now

Chapter
EUR 29.95
Price includes VAT (Germany)
  • Available as PDF
  • Read on any device
  • Instant download
  • Own it forever
eBook
EUR 93.08
Price includes VAT (Germany)
  • Available as EPUB and PDF
  • Read on any device
  • Instant download
  • Own it forever
Softcover Book
EUR 117.69
Price includes VAT (Germany)
  • Compact, lightweight edition
  • Dispatched in 3 to 5 business days
  • Free ship** 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. Ashburner, J.: A fast diffeomorphic image registration algorithm. Neuroimage 38(1), 95–113 (2007)

    Article  Google Scholar 

  2. Avants, B., Gee, J.C.: Geodesic estimation for large deformation anatomical shape averaging and interpolation. Neuroimage 23, S139–S150 (2004)

    Article  Google Scholar 

  3. Baid, U., et al.: The rsna-asnr-miccai brats 2021 benchmark on brain tumor segmentation and radiogenomic classification. ar**v preprint ar**v:2107.02314 (2021)

  4. Bhatia, K.K., Hajnal, J.V., Puri, B.K., Edwards, A.D., Rueckert, D.: Consistent groupwise non-rigid registration for atlas construction. In: 2nd IEEE International Symposium on Biomedical Imaging: Nano to Macro, pp. 908–911. IEEE (2004)

    Google Scholar 

  5. Cang, W.G., You, T., Seo, S., Kwak, S., Han, B.: Domain-specific batch normalization for unsupervised domain adaptation. In: Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition, pp. 7354–7362 (2019)

    Google Scholar 

  6. Che, T., et al.: DGR-Net: deep groupwise registration of multispectral images. In: Chung, A.C.S., Gee, J.C., Yushkevich, P.A., Bao, S. (eds.) IPMI 2019. LNCS, vol. 11492, pp. 706–717. Springer, Cham (2019). https://doi.org/10.1007/978-3-030-20351-1_55

    Chapter  Google Scholar 

  7. Dalca, A.V., Balakrishnan, G., Guttag, J., Sabuncu, M.R.: Unsupervised learning of probabilistic diffeomorphic registration for images and surfaces. Med. Image Anal. 57, 226–236 (2019)

    Article  Google Scholar 

  8. Geng, X., Christensen, G.E., Gu, H., Ross, T.J., Yang, Y.: Implicit reference-based group-wise image registration and its application to structural and functional MRI. Neuroimage 47(4), 1341–1351 (2009)

    Article  Google Scholar 

  9. He, Z., Chung, A.C.: Unsupervised end-to-end groupwise registration framework without generating templates. In: 2020 IEEE International Conference on Image Processing (ICIP), pp. 375–379. IEEE (2020)

    Google Scholar 

  10. Hering, A., et al.: Learn2Reg: comprehensive multi-task medical image registration challenge, dataset and evaluation in the era of deep learning. IEEE Trans. Med. Imaging 42(3), 697–712 (2022)

    Google Scholar 

  11. Hu, Y., et al.: Weakly-supervised convolutional neural networks for multimodal image registration. Med. Image Anal. 49, 1–13 (2018)

    Article  Google Scholar 

  12. Joshi, S.C., Davis, B.C., Jomier, M., Gerig, G.: Unbiased diffeomorphic atlas construction for computational anatomy. Neuroimage 23, S151–S160 (2004)

    Article  Google Scholar 

  13. Kavur, A.E., Selver, M.A., Dicle, O., Barı, M., Gezer, N.S.: CHAOS - Combined (CT-MR) Healthy Abdominal Organ Segmentation Challenge Data, April 2019. https://doi.org/10.5281/zenodo.3362844

  14. Kingma, D.P., Ba, J.: Adam: a method for stochastic optimization. In: 3rd International Conference on Learning Representations (2015)

    Google Scholar 

  15. Learned-Miller, E.G.: Data driven image models through continuous joint alignment. IEEE Trans. Pattern Anal. Mach. Intell. 28(2), 236–250 (2005)

    Article  Google Scholar 

  16. Liao, S., Jia, H., Wu, G., Shen, D.: A novel framework for longitudinal atlas construction with groupwise registration of subject image sequences. Neuroimage 59(2), 1275–1289 (2012)

    Article  Google Scholar 

  17. Lorenzen, P., Prastawa, M., Davis, B., Gerig, G., Bullitt, E., Joshi, S.: Multi-modal image set registration and atlas formation. Med. Image Anal. 10(3), 440–451 (2006)

    Article  Google Scholar 

  18. Luo, X., Zhuang, X.: X-metric: an n-dimensional information-theoretic framework for groupwise registration and deep combined computing. IEEE Trans. Pattern Anal. Mach. Intell. (2022)

    Google Scholar 

  19. 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 

  20. Metz, C.T., Klein, S., Schaap, M., van Walsum, T., Niessen, W.J.: Nonrigid registration of dynamic medical imaging data using nD+ t B-splines and a groupwise optimization approach. Med. Image Anal. 15(2), 238–249 (2011)

    Article  Google Scholar 

  21. Oktay, O., et al.: Attention u-net: learning where to look for the pancreas. In: Medical Imaging with Deep Learning (2018)

    Google Scholar 

  22. Orchard, J., Mann, R.: Registering a multisensor ensemble of images. IEEE Trans. Image Process. 19(5), 1236–1247 (2009)

    Article  MathSciNet  MATH  Google Scholar 

  23. Paszke, A., et al.: Automatic differentiation in pytorch (2017)

    Google Scholar 

  24. Polfliet, M., Klein, S., Huizinga, W., Paulides, M.M., Niessen, W.J., Vandemeulebroucke, J.: Intrasubject multimodal groupwise registration with the conditional template entropy. Med. Image Anal. 46, 15–25 (2018)

    Article  Google Scholar 

  25. Shi, Y., Paige, B., Torr, P., et al.: Variational mixture-of-experts autoencoders for multi-modal deep generative models. Adv. Neural Inf. Process. Syst. 32, 15718–15729 (2019)

    Google Scholar 

  26. Vahdat, A., Kautz, J.: Nvae: a deep hierarchical variational autoencoder. ar**v preprint ar**v:2007.03898 (2020)

  27. Wachinger, C., Navab, N.: Simultaneous registration of multiple images: similarity metrics and efficient optimization. IEEE Trans. Pattern Anal. Mach. Intell. 35(5), 1221–1233 (2012)

    Article  Google Scholar 

  28. Zhuang, X., et al.: Cardiac segmentation on late gadolinium enhancement MRI: a benchmark study from multi-sequence cardiac MR segmentation challenge. Med. Image Anal. 81, 102528 (2022)

    Article  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding author

Correspondence to **ahai Zhuang .

Editor information

Editors and Affiliations

Rights and permissions

Reprints and permissions

Copyright information

© 2023 The Author(s), under exclusive license to Springer Nature Switzerland AG

About this paper

Check for updates. Verify currency and authenticity via CrossMark

Cite this paper

Wang, X., Luo, X., Zhuang, X. (2023). BInGo: Bayesian Intrinsic Groupwise Registration via Explicit Hierarchical Disentanglement. In: Frangi, A., de Bruijne, M., Wassermann, D., Navab, N. (eds) Information Processing in Medical Imaging. IPMI 2023. Lecture Notes in Computer Science, vol 13939. Springer, Cham. https://doi.org/10.1007/978-3-031-34048-2_25

Download citation

  • DOI: https://doi.org/10.1007/978-3-031-34048-2_25

  • Published:

  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-031-34047-5

  • Online ISBN: 978-3-031-34048-2

  • eBook Packages: Computer ScienceComputer Science (R0)

Publish with us

Policies and ethics

Navigation