Mosaliganti Kishore, Pan Tony, Ridgway Randall, Sharp Richard, Cooper Lee, Gulacy Alex, Sharma Ashish, Irfanoglu Okan, Machiraju Raghu, Kurc Tahsin, de Bruin Alain, Wenzel Pamela, Leone Gustavo, Saltz Joel, Huang Kun
Department of Biomedical Informatics, The Ohio State University, 3190 Graves Hall, 333 West 10th Avenue, Columbus, OH 43210, USA.
J Biomed Inform. 2008 Dec;41(6):863-73. doi: 10.1016/j.jbi.2008.03.013. Epub 2008 Apr 7.
This paper presents a workflow designed to quantitatively characterize the 3D structural attributes of macroscopic tissue specimens acquired at a micron level resolution using light microscopy. The specific application is a study of the morphological change in a mouse placenta induced by knocking out the retinoblastoma gene.
This workflow includes four major components: (i) serial section image acquisition, (ii) image preprocessing, (iii) image analysis involving 2D pair-wise registration, 2D segmentation and 3D reconstruction, and (iv) visualization and quantification of phenotyping parameters. Several new algorithms have been developed within each workflow component. The results confirm the hypotheses that (i) the volume of labyrinth tissue decreases in mutant mice with the retinoblastoma (Rb) gene knockout and (ii) there is more interdigitation at the surface between the labyrinth and spongiotrophoblast tissues in mutant placenta. Additional confidence stem from agreement in the 3D visualization and the quantitative results generated.
The source code is available upon request.
本文介绍了一种工作流程，旨在对使用光学显微镜以微米级分辨率获取的宏观组织标本的三维结构属性进行定量表征。具体应用是研究敲除视网膜母细胞瘤基因后小鼠胎盘的形态变化。
该工作流程包括四个主要部分：（i）连续切片图像采集，（ii）图像预处理，（iii）涉及二维成对配准、二维分割和三维重建的图像分析，以及（iv）表型参数的可视化和量化。在每个工作流程组件中都开发了几种新算法。结果证实了以下假设：（i）视网膜母细胞瘤（Rb）基因敲除的突变小鼠中迷路组织的体积减小；（ii）突变胎盘迷路和海绵滋养层组织之间表面的指状交叉更多。三维可视化和定量结果的一致性进一步增强了可信度。
可根据要求提供源代码。
