Abstract
Accurate segmentation of the hippocampus from infant MR brain images is a critical step for investigating early brain development. Unfortunately, the previous tools developed for adult hippocampus segmentation are not suitable for infant brain images acquired from the first year of life, which often have poor tissue contrast and variable structural patterns of early hippocampal development. From our point of view, the main problem is lack of discriminative and robust feature representations for distinguishing the hippocampus from the surrounding brain structures. Thus, instead of directly using the predefined features as popularly used in the conventional methods, we propose to learn the latent feature representations of infant MR brain images by unsupervised deep learning. Since deep learning paradigms can learn low-level features and then successfully build up more comprehensive high-level features in a layer-by-layer manner, such hierarchical feature representations can be more competitive for distinguishing the hippocampus from entire brain images. To this end, we apply Stacked Auto Encoder (SAE) to learn the deep feature representations from both T1- and T2-weighed MR images combining their complementary information, which is important for characterizing different development stages of infant brains after birth. Then, we present a sparse patch matching method for transferring hippocampus labels from multiple atlases to the new infant brain image, by using deep-learned feature representations to measure the inter-patch similarity. Experimental results on 2-week-old to 9-month-old infant brain images show the effectiveness of the proposed method, especially compared to the state-of-the-art counterpart methods.
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Gousias, I.S., Edwards, A.D., Rutherford, M.A., et al.: Magnetic Resonance Imaging of the Newborn Brain: Manual Segmentation of Labelled Atlases in Term-Born and Preterm Infants. NeuroImage 62(3), 1499–1509 (2012)
Jorge Cardoso, M., Leung, K., Modat, M., et al.: Steps: Similarity and Truth Estimation for Propagated Segmentations and Its Application to Hippocampal Segmentation and Brain Parcelation. Medical Image Analysis 17(6), 671–684 (2013)
Hinton, G.E., Salakhutdinov, R.R.: Reducing the Dimensionality of Data with Neural Networks. Science 313(5786), 504–507 (2006)
Dietrich, R., Bradley, W., Zaragoza, E.T., et al.: MR Evaluation of Early Myelination Patterns in Normal and Developmentally Delayed Infants. American Journal of Roentgenology 150(4), 889–896 (1988)
Liao, S., Gao, Y., Lian, J., et al.: Sparse Patch-Based Label Propagation for Accurate Prostate Localization in CT Images. IEEE Transactions on Medical Imaging 32(2), 419–434 (2013)
Liu, J., Ji, S., Ye, J.: SLEP: Sparse Learning with Efficient Projections. Arizona State University (2009)
Jenkinson, M., Bannister, P., Brady, M., et al.: Improved Optimization for the Robust and Accurate Linear Registration and Motion Correction of Brain Images. NeuroImage 17(2), 825–841 (2002)
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Guo, Y. et al. (2014). Segmenting Hippocampus from Infant Brains by Sparse Patch Matching with Deep-Learned Features. In: Golland, P., Hata, N., Barillot, C., Hornegger, J., Howe, R. (eds) Medical Image Computing and Computer-Assisted Intervention – MICCAI 2014. MICCAI 2014. Lecture Notes in Computer Science, vol 8674. Springer, Cham. https://doi.org/10.1007/978-3-319-10470-6_39
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DOI: https://doi.org/10.1007/978-3-319-10470-6_39
Publisher Name: Springer, Cham
Print ISBN: 978-3-319-10469-0
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