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Nabla-net: A Deep Dag-Like Convolutional Architecture for Biomedical Image Segmentation

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Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries (BrainLes 2016)

Abstract

Biomedical image segmentation requires both voxel-level information and global context. We report on a deep convolutional architecture which combines a fully-convolutional network for local features and an encoder-decoder network in which convolutional layers and maxpooling compute high-level features, which are then upsampled to the resolution of the initial image using further convolutional layers and tied unpooling. We apply the method to segmenting multiple sclerosis lesions and gliomas.

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References

  • Badrinarayanan, V., Kendall, A., Cipolla, R.: SegNet: a deep convolutional encoder-decoder architecture for image segmentation. In: CVPR, vol. 5 (2015). doi:10.1103/PhysRevX.5.041024

  • Brosch, T., Tang, L., Yoo, Y., Li, D., Traboulsee, A., Tam, R.: Deep 3D convolutional encoder networks with shortcuts for multiscale feature integration applied to multiple sclerosis lesion segmentation. IEEE Trans. Med. Imaging PP(99), 1 (2016). doi:10.1109/TMI.2016.2528821

    Google Scholar 

  • Hariharan, B., Arbeláez, P., Girshick, R., Malik, J.: Hypercolumns for object segmentation and fine-grained localization. In: Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition, pp. 447–456, 07–12 June 2015. doi:10.1109/CVPR.2015.7298642

  • Ioffe, S., Szegedy, C.: Batch normalization: accelerating deep network training by reducing internal covariate shift, pp. 1–11. ArXiv:1502.03167 (2015). doi:10.1007/s13398-014-0173-7.2

  • Jarrett, K., Kavukcuoglu, K., Ranzato, M., LeCun, Y.: What is the best multi-stage architecture for object recognition? In: Proceedings of the IEEE International Conference on Computer Vision, pp. 2146–2153 (2009). doi:10.1109/ICCV.2009.5459469

  • LeCun, Y., Bengio, Y., Hinton, G.: Deep learning. Nature 521(7553), 436–444 (2015). doi:10.1038/nature14539

    Article  Google Scholar 

  • Long, J., Shelhamer, E., Darrell, T.: Fully convolutional networks for semantic segmentation. In: Proceedings of the IEEE Computer Society Conference on Computer Vision and Pattern Recognition, pp. 3431–3440, 07–12 June-2015. doi:10.1109/CVPR.2015.7298965

  • Ronneberger, O., Fischer, P., Brox, T.: U-net: convolutional networks for biomedical image segmentation. In: Navab, N., Hornegger, J., Wells, W.M., Frangi, A.F. (eds.) MICCAI 2015. LNCS, vol. 9351, pp. 234–241. Springer, Cham (2015). doi:10.1007/978-3-319-24574-4_28

    Chapter  Google Scholar 

  • Zeiler, M.D., Taylor, G.W., Fergus, R.: Adaptive deconvolutional networks for mid and high level feature learning. In: Proceedings of the IEEE International Conference on Computer Vision, pp. 2018–2025 (2011). doi:10.1109/ICCV.2011.6126474

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Correspondence to Richard McKinley .

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McKinley, R. et al. (2016). Nabla-net: A Deep Dag-Like Convolutional Architecture for Biomedical Image Segmentation. In: Crimi, A., Menze, B., Maier, O., Reyes, M., Winzeck, S., Handels, H. (eds) Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries. BrainLes 2016. Lecture Notes in Computer Science(), vol 10154. Springer, Cham. https://doi.org/10.1007/978-3-319-55524-9_12

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  • DOI: https://doi.org/10.1007/978-3-319-55524-9_12

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  • Publisher Name: Springer, Cham

  • Print ISBN: 978-3-319-55523-2

  • Online ISBN: 978-3-319-55524-9

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