Neuronal nuclei localization in 3D using level set and watershed segmentation from laser scanning microscopy images
Neuronal nuclei localization in 3D using level set and watershed segmentation from laser scanning microscopy images
复制标题
使用激光扫描显微镜图像的水平集和分水岭分割进行 3D 神经元核定位
DOI：
10.1117/12.770849
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发表时间：
2008
影响因子：
10.6
通讯作者：
A. Król
中科院分区：
文献类型：
--
作者：
Yingxuan Zhu;Eric Olson;Arun Subramanian;D. Feiglin;P. Varshney;A. Król
细胞数量和位置的缺失是发育性和退行性神经系统疾病的标志。然而，标准的体视学方法对于在大体积脑组织内分配每个细胞的核位置是不切实际的。我们提出了一种自动化的方法分割和定位的脑细胞核的激光扫描显微镜（LSM）胚胎小鼠脑图像。首先在每个光学平面上使用水平集（LS）和分水岭方法分割这些图像中的细胞核。通过应用来自相邻光学平面的信息和核形状的先验知识，进一步细化分割结果。然后，分割之后的核（CN）的质心的3D定位算法。因此，与原始图像系列相比，每个组织体积由质心的集合表示，导致数据集大小减少约10，000倍。我们的方法已经过测试，从胚胎小鼠大脑获得的LSM图像，并进行了比较，由专家进行的分割和CN本地化。使用我们的方法获得的氯化萘位置与专家获得的氯化萘位置之间的平均欧几里得距离为1.58±1.24微米，该值正好在每个核的平均半径约5微米的范围内。我们的结论是，我们的方法准确地分割和定位CN细胞致密的胚胎组织内。
Abnormalities of the number and location of cells are hallmarks of both developmental and degenerative neurological diseases. However, standard stereological methods are impractical for assigning each cell's nucleus position within a large volume of brain tissue. We propose an automated approach for segmentation and localization of the brain cell nuclei in laser scanning microscopy (LSM) embryonic mouse brain images. The nuclei in these images are first segmented by using the level set (LS) and watershed methods in each optical plane. The segmentation results are further refined by application of information from adjacent optical planes and prior knowledge of nuclear shape. Segmentation is then followed with an algorithm for 3D localization of the centroid of nucleus (CN). Each volume of tissue is thus represented by a collection of centroids leading to an approximate 10,000-fold reduction in the data set size, as compared to the original image series. Our method has been tested on LSM images obtained from an embryonic mouse brain, and compared to the segmentation and CN localization performed by an expert. The average Euclidian distance between locations of CNs obtained using our method and those obtained by an expert is 1.58±1.24 µm, a value well within the ~5 µm average radius of each nucleus. We conclude that our approach accurately segments and localizes CNs within cell dense embryonic tissue.