Abstract
Accurate segmentation of brain regions has become increasingly important in the early diagnosis of brain diseases. Widely used methods for brain region segmentation usually rely on atlases and deformations, which require manual intervention and do not focus on tiny object segmentation. To address the challenge of tiny brain regions segmentation, we propose a two-stage segmentation network based on deep learning, using both 2D and 3D convolution. We first introduce the concept of the Small Object Distribution Map (SODM), allowing the model to perform coarse-to-fine segmentation for objects of different scales. Then, a contrastive loss function is implemented to automatically mine difficult negative samples, and two attention modules are added to assist in the accurate generation of the small object distribution map. Experimental results on a dataset of 120 brain MRI demonstrate that our method outperforms existing approaches in terms of objective evaluation metrics and subjective visual effects and shows promising potential for assisting in the diagnosis of brain diseases.
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References
Naz, F.: Human brain disorders: a review. Open Biol. J. 8, 6–21 (2020)
Kuklisova-Murgasova, M., Aljabar, P., Srinivasan, L.: A dynamic 4D probabilistic atlas of the developing brain. Neuroimage 54(4), 2750–2763 (2011)
Wachinger, C., Golland, P.: Atlas-based under-segmentation. In: Golland, P., Hata, N., Barillot, C., Hornegger, J., Howe, R. (eds.) MICCAI 2014. LNCS, vol. 8673, pp. 315–322. Springer, Cham (2014). https://doi.org/10.1007/978-3-319-10404-1_40
del Fresno, M., Vénere, M., Clausse, A.: A combined region growing and deformable model method for extraction of closed surfaces in 3D CT and MRI scans. Comput. Med. Imaging Graph. 33(5), 69–376 (2009)
Kass, M., Witkin, A., Terzopoulos, D.: Snakes: active contour models. Int. J. Comput. Vision 1(4), 321–331 (1988)
Moreno, J.C., Prasath, V.S., Proenca, H., Palaniappan, K.: Fast and globally convex multiphase active contours for brain MRI segmentation. Comput. Vis. Image Underst. 125, 237–250 (2014)
Rivest-Hénault, D., Cheriet, M.: Unsupervised MRI segmentation of brain tissues using a local linear model and level set. Magn. Reson. Imaging 29(2), 243–259 (2011)
Tan, C., Guan, Y., Feng, Z., et al.: DeepBrainSeg: automated brain region segmentation for micro-optical images with a convolutional neural network. Front. Neurosci. 14(279), 1–13 (2020)
Ronneberger, O., Fischer, P., Brox, T.: U-net: convolutional networks for biomedical image segmentation. Lect. Notes Comput. Sci. 9351, 234–241 (2015)
Isensee, F., Jaeger, P.F., Kohl, S.A.: nnU-Net: a self-configuring method for deep learning-based biomedical image segmentation. Nat. Methods 18(2), 203–211 (2021)
Van, B.: Functional imaging: CT and MRI. Clin. Chest Med. 29(1), 195–216 (2008)
Jaccard, P.: The distribution of the flora in the alpine zone. New Phytol. 11(2), 37–50 (1912)
Meng, L., Zhang, Q., Bu, S.: Two-Stage liver and tumor segmentation algorithm based on convolutional neural network. Diagnostics 11(10), 1806 (2021)
De Brebisson, A., Montana, G.: Deep neural networks for anatomical brain segmentation. In: Proceedings of the IEEE Conference on Computer Vision and Pattern Recognition Workshops, pp. 20–28 (2015)
Wang, F., Liu, H.: Understanding the behaviour of contrastive loss. In: Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition, pp. 2495–2504 (2021)
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
Acknowledgements
This work was supported in part by the National Key R &D Program of China (No. 2022ZD0118201), Natural Science Foundation of China (No. 61972217, 32071459, 62176249, 62006133, 62271465).
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Ren, Y., Zheng, X., Ji, R., Chen, J. (2024). Two-Stage Deep Learning Segmentation for Tiny Brain Regions. In: Liu, Q., et al. Pattern Recognition and Computer Vision. PRCV 2023. Lecture Notes in Computer Science, vol 14437. Springer, Singapore. https://doi.org/10.1007/978-981-99-8558-6_15
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DOI: https://doi.org/10.1007/978-981-99-8558-6_15
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