Segmentation of tumor regions using 3D-UNet in magnetic resonance imaging
Abstract
Brain tumor has been a severe problem for a few decades ago. With the advancement in medical technologies, a brain tumor can be treated if observed earlier. This paper aims to segment and classify the tumor regions from Magnetic Resonance Imaging (MRI). The work consists of two steps. In step1, the 3D MRI images are pre-processed by the Salient Object Detection method to improve efficiency. In step2, the improved 3D-Res2UNet segments the tumor regions. The segmented tumors are partitioned into two classes using a Support Vector Machine (SVM) classifier. The method is tested using BRATS 2017 and 2018 datasets and obtained 87.1% and 99.2% dice score for BRATS 2017 and 2018, respectively. The performance of the proposed method is better compared to most recent methods.
Keywords
Full Text:
PDFReferences
1. Wang G, Li W, Ourselin S, et al. Automatic Brain Tumor Segmentation Based on Cascaded Convolutional Neural Networks with Uncertainty Estimation. Frontiers in Computational Neuroscience. 2019, 13. doi: 10.3389/fncom.2019.00056
2. Xu H, Xie H, Liu Y, et al. Deep cascaded attention network for multi-task brain tumor segmentation. In: International Conference on Medical Image Computing and Computer-Assisted Intervention. Springer; 2019. pp. 420–428.
3. Thaha MM, Kumar KP, Murugan BS, Dhanasekeran S, Vijayakarthick P, Selvi AS. Brain tumor segmentation using convolutional neural networks in MRI images. Journal of medical systems. 2019; 43:1-0.
4. Hu Y, Liu X, Wen X, et al. Brain Tumor Segmentation on Multimodal MR Imaging Using Multi-level Upsampling in Decoder. Lecture Notes in Computer Science. Published online 2019: 168-177. doi: 10.1007/978-3-030-11726-9_15
5. Tuan TA, Tuan TA, Bao PT. Brain Tumor Segmentation Using Bit-plane and UNET. Lecture Notes in Computer Science. Published online 2019: 466-475. doi: 10.1007/978-3-030-11726-9_41
6. Weninger L, Rippel O, Koppers S, et al. Segmentation of Brain Tumors and Patient Survival Prediction: Methods for the BraTS 2018 Challenge. Lecture Notes in Computer Science. Published online 2019: 3-12. doi: 10.1007/978-3-030-11726-9_1
7. Hu X, Li H, Zhao Y, et al. Hierarchical Multi-class Segmentation of Glioma Images Using Networks with Multi-level Activation Function. Lecture Notes in Computer Science. Published online 2019: 116-127. doi: 10.1007/978-3-030-11726-9_11
8. Serrano-Rubio JP, Everson R. Brain Tumour Segmentation Method Based on Supervoxels and Sparse Dictionaries. Lecture Notes in Computer Science. Published online 2019: 210-221. doi: 10.1007/978-3-030-11726-9_19
9. Miller KD, Ostrom QT, Kruchko C, et al. Brain and other central nervous system tumor statistics, 2021. CA: A Cancer Journal for Clinicians. 2021, 71(5): 381-406. doi: 10.3322/caac.21693
10. Zhou T, Canu S, Vera P, et al. Latent Correlation Representation Learning for Brain Tumor Segmentation with Missing MRI Modalities. IEEE Transactions on Image Processing. 2021, 30: 4263-4274. doi: 10.1109/tip.2021.3070752
11. Zhang D, Huang G, Zhang Q, et al. Cross-modality deep feature learning for brain tumor segmentation. Pattern Recognition. 2021, 110: 107562. doi: 10.1016/j.patcog.2020.107562
12. Pereira S, Pinto A, Amorim J, et al. Adaptive Feature Recombination and Recalibration for Semantic Segmentation with Fully Convolutional Networks. IEEE Transactions on Medical Imaging. 2019, 38(12): 2914-2925. doi: 10.1109/tmi.2019.2918096
13. Rehman MU, Cho S, Kim J, et al. BrainSeg-Net: Brain Tumor MR Image Segmentation via Enhanced Encoder–Decoder Network. Diagnostics. 2021, 11(2): 169. doi: 10.3390/diagnostics11020169
14. Li H, Li A, Wang M. A novel end-to-end brain tumor segmentation method using improved fully convolutional networks. Computers in Biology and Medicine. 2019, 108: 150-160. doi: 10.1016/j.compbiomed.2019.03.014
15. Punn NS, Agarwal S. Multi-modality encoded fusion with 3D inception U-net and decoder model for brain tumor segmentation. Multimedia Tools and Applications. 2020, 80(20): 30305-30320. doi: 10.1007/s11042-020-09271-0
16. Chen C, Liu X, Ding M, et al. 3D Dilated Multi-fiber Network for Real-Time Brain Tumor Segmentation in MRI. Medical Image Computing and Computer Assisted Intervention—MICCAI 2019. Published online 2019: 184-192. doi: 10.1007/978-3-030-32248-9_21
17. Ranjbarzadeh R, Bagherian Kasgari A, Jafarzadeh Ghoushchi S, et al. Brain tumor segmentation based on deep learning and an attention mechanism using MRI multi-modalities brain images. Scientific Reports. 2021, 11(1). doi: 10.1038/s41598-021-90428-8
18. Chen G, Li Q, Shi F, et al. RFDCR: Automated brain lesion segmentation using cascaded random forests with dense conditional random fields. NeuroImage. 2020, 211: 116620. doi: 10.1016/j.neuroimage.2020.116620
19. Zhang D, Huang G, Zhang Q, et al. Exploring Task Structure for Brain Tumor Segmentation from Multi-Modality MR Images. IEEE Transactions on Image Processing. 2020, 29: 9032-9043. doi: 10.1109/tip.2020.3023609
20. Sharif MI, Li JP, Amin J, et al. An improved framework for brain tumor analysis using MRI based on YOLOv2 and convolutional neural network. Complex & Intelligent Systems. 2021, 7(4): 2023-2036. doi: 10.1007/s40747-021-00310-3
21. Zhuge Y, Ning H, Mathen P, et al. Automated glioma grading on conventional MRI images using deep convolutional neural networks. Medical Physics. 2020, 47(7): 3044-3053. doi: 10.1002/mp.14168
22. Narmatha C, Eljack SM, Tuka AARM, et al. A hybrid fuzzy brain-storm optimization algorithm for the classification of brain tumor MRI images. Journal of Ambient Intelligence and Humanized Computing. Published online August 14, 2020. doi: 10.1007/s12652-020-02470-5
23. Ronneberger O, Fischer P, Brox T. U-Net: Convolutional Networks for Biomedical Image Segmentation. Medical Image Computing and Computer-Assisted Intervention—MICCAI 2015. Published online 2015: 234-241. doi: 10.1007/978-3-319-24574-4_28
24. Gupta AK, Seal A, Prasad M, et al. Salient Object Detection Techniques in Computer Vision—A Survey. Entropy. 2020, 22(10): 1174. doi: 10.3390/e22101174
25. Zhang J, Sclaroff S, Lin Z, et al. Unconstrained Salient Object Detection via Proposal Subset Optimization. 2016 IEEE Conference on Computer Vision and Pattern Recognition (CVPR). Published online June 2016. doi: 10.1109/cvpr.2016.618
26. Xiao Z, Liu B, Geng L, et al. Segmentation of Lung Nodules Using Improved 3D-UNet Neural Network. Symmetry. 2020, 12(11): 1787. doi: 10.3390/sym12111787
27. Gao SH, Cheng MM, Zhao K, et al. Res2Net: A New Multi-Scale Backbone Architecture. IEEE Transactions on Pattern Analysis and Machine Intelligence. 2021, 43(2): 652-662. doi: 10.1109/tpami.2019.2938758
DOI: https://doi.org/10.32629/jai.v7i5.1058
Refbacks
- There are currently no refbacks.
Copyright (c) 2024 Divya Mohan, Ulagamuthalvi Venugopal, Nisha Joseph, Kulanthaivel Govindarajan
License URL: https://creativecommons.org/licenses/by-nc/4.0/