Multi-channel Deep Transfer Learning for Nuclei Segmentation in Glioblastoma Cell Tissue Images
Segmentation and quantification of cell nuclei is an important task in tissue microscopy image analysis. We introduce a deep learning method leveraging atrous spatial pyramid pooling for cell segmentation. We also present two different approaches for transfer learning using datasets with a different number of channels. A quantitative comparison with previous methods was performed on challenging glioblastoma cell tissue images. We found that our transfer learning method improves the segmentation result.
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- 1.Dima AA, Elliott JT, Filliben JJ, et al. Comparison of segmentation algorithms for fluorescence microscopy images of cells. Cytometry Part A. 2011;79(7):545–559.Google Scholar
- 2.Ronneberger O, Fischer P, Brox T. U-Net: convolutional networks for biomedical image segmentation. Proc MICCAI. 2015; p. 234–241.Google Scholar
- 3.Huh M, Agrawal P, Efros AA. What makes ImageNet good for transfer learning?. arXiv:1608.08614; 2016.
- 4.Ioffe S, Szegedy C. Batch normalization: Accelerating deep network training by reducing internal covariate shift. Proc ICML. 2015; p. 448–456.Google Scholar
- 5.He K, Zhang X, Ren S, et al. Deep residual learning for image recognition. Proc CVPR. 2016; p. 770–778.Google Scholar
- 6.Chen LC, Papandreou G, Kokkinos I, et al.. Deeplab: Semantic image segmentation with deep convolutional nets, atrous convolution, and fully connected CRFs. arXiv:1606.00915; 2016.
- 7.He K, Zhang X, Ren S, et al. Delving deep into rectifiers: Surpassing human-level performance on imagenet classification. Proc ICCV. 2015; p. 1026–1034.Google Scholar
- 8.Jain V, Bollmann B, Richardson M, et al. Boundary learning by optimization with topological constraints. Proc CVPR. 2010; p. 2488–2495.Google Scholar
- 9.Osterwald S, Deeg KI, Chung I, et al. PML induces compaction, TRF2 depletion and DNA damage signaling at telomeres and promotes their alternative lengthening. J Cell Sci. 2015;128(10):1887–1900.Google Scholar
- 10.Sethian JA. Level Set Methods and Fast Marching Methods. vol. 3. Cambridge University Press; 1999.Google Scholar