Abstract
The infant brain develops dramatically during the first two years of life. Accurate segmentation of brain tissues is essential to understand the early development of both normal and disease changes. However, the segmentation results of the same subject could demonstrate unexpectedly large variations across different time points, which may even lead to inaccurate and inconsistent results in charting infant brain development. In this paper, we propose a deep learning framework, which simultaneously exploits registration and segmentation for guaranteeing the longitudinal consistency among the segmentation results. Firstly, a manual label-guided registration model is designed to fast and accurately obtain the warped images from other time points. Secondly, a segmentation network with a longitudinal consistency constraint is developed to effectively obtain the temporal segmentation results. Thus, our proposed segmentation network could exploit the tissue information of warped intensity images from other time points to aid in segmenting the isointense phase (approximately 6–8 months) data, which is the most difficult case due to the low intensity contrast of tissues. Extensive experiments on infant brain images have shown improved performance achieved by our proposed method, compared with the existing state-of-the-art methods.
Y. Sun and J. Liu—These authors contributed equally to this work.
Access this chapter
Tax calculation will be finalised at checkout
Purchases are for personal use only
References
Sowell, E.R., Thompson, P.M., Leonard, C.M., Welcome, S.E., Kan, E., Toga, A.W.: Longitudinal mapping of cortical thickness and brain growth in normal children. J. Neurosci. 24(38), 8223–8231 (2004)
Zhang, C., Adeli, E., Wu, Z., Li, G., Lin, W., Shen, D.: Infant brain development prediction with latent partial multi-view representation learning. IEEE Trans. Med. Imaging 38(4), 909–918 (2018)
Chen, L., et al.: A 4D infant brain volumetric atlas based on the UNC/UMN baby connectome project (BCP) cohort. Neuroimage 253, 119097 (2022)
Shi, F., et al.: Infant brain atlases from neonates to 1-and 2-year-olds. PLoS ONE 6(4), e18746 (2011)
Hazlett, H.C., et al.: Brain volume findings in 6-month-old infants at high familial risk for autism. Am. J. Psychiatry 169(6), 601–608 (2012)
Weisenfeld, N.I., Warfield, S.K.: Automatic segmentation of newborn brain MRI. Neuroimage 47(2), 564–572 (2009)
Avants, B.B., Tustison, N., Song, G., et al.: Advanced normalization tools (ANTs). Insight j 2(365), 1–35 (2009)
Thirion, J.P.: Image matching as a diffusion process: an analogy with maxwell’s demons. Med. Image Anal. 2(3), 243–260 (1998)
Wang, L., Shi, F., Yap, P.T., Gilmore, J.H., Lin, W., Shen, D.: 4D multi-modality tissue segmentation of serial infant images (2012)
Wu, G., Wang, L., Gilmore, J., Lin, W., Shen, D.: Joint segmentation and registration for infant brain images. In: Menze, B., et al. (eds.) MCV 2014. LNCS, vol. 8848, pp. 13–21. Springer, Cham (2014). https://doi.org/10.1007/978-3-319-13972-2_2
Shi, F., Yap, P.-T., Gilmore, J.H., Lin, W., Shen, D.: Spatial-temporal constraint for segmentation of serial infant brain MR images. In: Liao, H., Edwards, P.J.E., Pan, X., Fan, Y., Yang, G.-Z. (eds.) MIAR 2010. LNCS, vol. 6326, pp. 42–50. Springer, Heidelberg (2010). https://doi.org/10.1007/978-3-642-15699-1_5
Wang, L., Shi, F., Yap, P.-T., Gilmore, J.H., Lin, W., Shen, D.: Accurate and consistent 4D segmentation of serial infant brain MR images. In: Liu, T., Shen, D., Ibanez, L., Tao, X. (eds.) MBIA 2011. LNCS, vol. 7012, pp. 93–101. Springer, Heidelberg (2011). https://doi.org/10.1007/978-3-642-24446-9_12
Nie, D., Wang, L., Adeli, E., Lao, C., Lin, W., Shen, D.: 3-D fully convolutional networks for multimodal isointense infant brain image segmentation. IEEE Trans. Cybern. 49(3), 1123–1136 (2018)
Qamar, S., Jin, H., Zheng, R., Ahmad, P., Usama, M.: A variant form of 3D-UNet for infant brain segmentation. Futur. Gener. Comput. Syst. 108, 613–623 (2020)
Payakachat, N., Tilford, J.M., Ungar, W.J.: National database for autism research (NDAR): big data opportunities for health services research and health technology assessment. Pharmacoeconomics 34(2), 127–138 (2016)
Bandara, W.G.C., Patel, V.M.: HyperTransformer: a textural and spectral feature fusion transformer for pansharpening. In: Proceedings of the IEEE/CVF Conference on Computer Vision and Pattern Recognition (CVPR), pp. 1767–1777 (2022)
Yu, L., et al.: Automatic 3D cardiovascular MR segmentation with densely-connected volumetric ConvNets. In: Descoteaux, M., Maier-Hein, L., Franz, A., Jannin, P., Collins, D.L., Duchesne, S. (eds.) MICCAI 2017. LNCS, vol. 10434, pp. 287–295. Springer, Cham (2017). https://doi.org/10.1007/978-3-319-66185-8_33
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
Acknowledgment
This work was supported in part by National Natural Science Foundation of China (No. 62131015 and 62203355), and Science and Technology Commission of Shanghai Municipality (STCSM) (No. 21010502600), and The Key R &D Program of Guangdong Province, China (No. 2021B0101420006).
Author information
Authors and Affiliations
Corresponding author
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2024 The Author(s), under exclusive license to Springer Nature Switzerland AG
About this paper
Cite this paper
Sun, Y. et al. (2024). Consistent and Accurate Segmentation for Serial Infant Brain MR Images with Registration Assistance. In: Cao, X., Xu, X., Rekik, I., Cui, Z., Ouyang, X. (eds) Machine Learning in Medical Imaging. MLMI 2023. Lecture Notes in Computer Science, vol 14348. Springer, Cham. https://doi.org/10.1007/978-3-031-45673-2_19
Download citation
DOI: https://doi.org/10.1007/978-3-031-45673-2_19
Published:
Publisher Name: Springer, Cham
Print ISBN: 978-3-031-45672-5
Online ISBN: 978-3-031-45673-2
eBook Packages: Computer ScienceComputer Science (R0)