Deformation-based nonlinear dimension reduction: Applications to nuclear morphometry
Deformation-based nonlinear dimension reduction: Applications to nuclear morphometry
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基于变形的非线性降维：在核形态测量中的应用
DOI：
10.1109/isbi.2008.4541042
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发表时间：
2008
期刊：
影响因子：
--
通讯作者：
R. Murphy
中科院分区：
文献类型：
--
作者：
G. Rohde;Wei Wang;Tao Peng;R. Murphy
我们描述了一种新的方法，用于阐明在数字图像中描绘的形状分布的非线性自由度。通过将用于测量两个形状配置之间的距离的基于变形的方法与多维缩放结合，描述了用于确定形状分布中的自由度的数量的方法。此外，还提出了一种用于可视化核形状分布中最具代表性的变化模式（基本形状参数化）的方法。新的方法考虑到形状流形的非线性性质，并与ISOMAP算法。我们将该方法应用于分析HeLa细胞核的形状分布的任务，并得出结论，大约有三个参数是负责它们的形状变化。不包括尺寸、平移和方向的差异，这些差异是：伸长、弯曲（弯曲）和质量分布的变化。此外，结果表明，与通常的直觉相反，最可能的核形状配置是不对称的。
We describe a new approach for elucidating the nonlinear degrees of freedom in a distribution of shapes depicted in digital images. By combining a deformation-based method for measuring distances between two shape configurations together with multidimensional scaling, a method for determining the number of degrees of freedom in a shape distribution is described. In addition, a method for visualizing the most representative modes of variation (underlying shape parameterization) in a nuclei shape distribution is also presented. The novel approach takes into account the nonlinear nature of shape manifolds and is related to the ISOMAP algorithm. We apply the method to the task of analyzing the shape distribution of HeLa cell nuclei and conclude that approximately three parameters are responsible for their shape variation. Excluding differences in size, translation, and orientation, these are: elongation, bending (concavity), and shifts in mass distribution. In addition, results show that, contrary to common intuition, the most likely nuclear shape configuration is not symmetric.