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| Brain Extraction Method Based on SIFT Feature Matching among Key Points |
| Jiang Shaofeng*, Huang Zhipeng, Yang Suhua, Chen Zhen, Zhang Congxuan |
| School of Measuring and Optical Engineering, Nanchang Hangkong University, Nanchang 330063, China |
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Abstract Brain extraction is an important preprocessing step in most of image analyses for cerebral MRI image. ASIFT(Scale Invariant Featun Transform) feature matching based brain extraction method was proposed in this paper for the precise and robust brain extraction. This method combined the tessellated surface based method (BET) and atlas based method. Firstly,the BET method was used to evolve the brain contour, and the SIFT features of the key points on brain contour were extracted iteratively to find the matched key points between the target image and atlas image using weak constraint of spatial distance based matching method. Next, the matched points were used to renew the parameter of BET and the brain contour iteratively, thus a robust brain contour was obtained. At last, a graph cuts method was used to refine the brain contour to obtain a precise brain contour. Twenty MRI volumes from IBSR web site were tested using this method and other three methods, and the proposed method obtained the highest Dice precision (0.962±0.008), Jaccard precision (0.926±0.014) and specificity (0.994±0.004), as well as the lowest false positives rate (4.95%±2.74%) and lower false negatives rate (2.82%±2.0%). The highest extraction precisions demonstrated this method precise, and the lower corresponding standard deviations showed this method was robust. Therefore, this proposed method is a precise and robust brain extraction method.
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Received: 05 June 2017
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[1] Cox RW. AFNI: Software for analysis and visualization of functional magnetic resonance neuroimages [J]. Comput Biomed Res, 1996, 29(3): 162-173.
[2] Gambino O, Daidone E, Sciortino M, et al. Automatic skull stripping in MRI based on morphological filters and fuzzy c-means segmentation [C]//IEEE EMBS Conference Proceedings. Boston: IEEE Conference Publications, 2011:5040-5043.
[3] Roura E, Oliver A, Cabezas M, et al. MARGA: Multispectral adaptive region growing algorithm for brain extraction on axial MRI [J]. Computer Methods and Programs in Biomedicine, 2014, 113(2): 655-673.
[4] Sadananthan SA, Zheng W, Chee MW, et al. Skull stripping using graph cuts [J]. Neuro Image, 2010, 49(1): 225-239.
[5] 郑小林, 李敏, 罗洪艳, 等. 基于数学形态学的新方法在脑组织分割中的应用[J]. 仪器仪表学报, 2010, 31(2): 464-469.
[6] 韩翀蛟, 林相波, 马慧超, 等. 基于层间先验知识从脑MRI图像中自动提取脑组织[J]. 生物医学工程与临床, 2011, 15(2): 111-115.
[7] Shattuck DW, Sandor-Leahy SR, Schaper KA, et al. Magnetic resonance image tissue classification using a partial volume model [J]. Neuro Image, 2001, 13(5): 856-876,
[8] Smith SM. Fast robust automated brain extraction [J]. Human Brain Mapping, 2002, 17(3): 143-155.
[9] Zhuang AH, Valentino DJ, Toga AW. Skull-stripping magnetic resonance brain images using a model-based level set [J]. NeuroImage, 2006, 32(1): 79-92.
[10] Liu Jiaxiu, Chen Yongsheng, Chen Lifen. Accurate and robust extraction of brain regions using a deformable model based on radial basis functions [J]. Journal of Neuroscience Methods, 2009, 183(2): 255-266.
[11] Zhang Haiyan, Liu Jiafeng, Zhu Zixin, et al. An automated and simple method for brain MR image extraction [J]. Biomedical Engineering Online, 2011, 10:81.
[12] Wang Yaping, Nie Jingxin, Yap PT, et al. Robust deformable surface based skull stripping for large-scale studies [J]. Med Image Comput Comput Assist Interv, 2011, 14 (Pt 3):635-642.
[13] Eskildsen SF, Coupé P, Fonov V, et al. BEaST: Brain extraction based on nonlocal segmentation technique. NeuroImage, 2012, 59(3): 2362-2373.
[14] Iglesias J, Liu Chengyi, Thompson P, et al. Robust brain extraction across datasets and comparison with publicly available methods [J]. IEEE Trans. Medical Imaging, 2011, 30(9): 1617-1634.
[15] Segonne F, Dale AM, Busa E, et al. A hybrid approach to the skull stripping problem in MRI [J]. NeuroImage, 2004, 22(3): 1060-1075.
[16] Jiang Shaofeng, Zhang Weirui, Wang Yu, et al. Brain extraction from cerebral MRI volume using a hybrid level set based active contour neighborhood model [J]. Biomedical Engineering Online, 2013, 12: 31.
[17] Galdames FJ, Jaillet F, Perez CA. An accurate skull stripping method based on simplex meshes and histogram analysis for magnetic resonance images [J]. Journal of Neuroscience Methods, 2012, 206(2):103-119.
[18] 税午阳, 周明全, 耿国华. 磁共振颅脑图像的脑组织自动获取方法[J]. 软件学报, 2009, 20(5): 1139-1145.
[19] 贾迪, 杨金柱, 张一飞, 等. 序列磁共振颅脑影像的脑组织自动提取方法[J]. 仪器仪表学报, 2011, 32 (8): 1781-1787.
[20] Wang Yaping, Nie Jingxin, Yap PT, et al. Knowledge-Guided robust MRI brain extraction for diverse large-scale neuroimaging studies on humans and non-Human primates [J]. PLoS ONE, 2014, 9(1): e77810.
[21] Lowe DG. Distinctive image features from scale-invariant key points [J]. International Journal of Computer Vision, 2004, 60(2): 91～110.
[22] Fennema-Notestine C, Ozyurt IB, Clark CP, et al. Quantitative evaluation of automated skull-stripping methods applied to contemporary and legacy images: Effects of diagnosis, bias correction, and slice location [J]. Human Brain Mapping. 2006, 27(2): 99-113. |
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