Lossless 3-D reconstruction and registration of semi-quantitative gene expression data in the mouse brain.
Lossless 3-D reconstruction and registration of semi-quantitative gene expression data in the mouse brain.
复制标题
小鼠大脑中半定量基因表达数据的无损 3D 重建和记录。
DOI：
10.1109/iembs.2011.6091994
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发表时间：
2011
期刊：
影响因子：
--
通讯作者：
Carson,JamesP
中科院分区：
文献类型：
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作者：
Enlow,MatthewA;Ju,Tao;Kakadiaris,IoannisA;Carson,JamesP
随着成像、计算和数据存储技术的进步，对三维数据集 (3-D) 进行多尺度分析的机会越来越多。例如，这种分析使得能够在整个宏观样本中比较多个宏观样本的微观元素。空间比较需要将数据集进行共同对齐。共同对齐的一种方法除了刚性对齐之外还涉及数据的弹性变形。弹性变形会扭曲空间，如果不加以考虑，可能会扭曲微观尺度的信息。这项工作中开发的算法通过允许将多个数据点编码到单个图像像素中来解决这个问题，适当地跟踪每个数据点以确保弹性空间变形期间的无损数据映射。该方法是针对图像的 2D 和 3D 配准而开发和实施的。无损重建和配准应用于小鼠大脑中的半定量细胞基因表达数据，从而能够在不增加任何细胞数据的情况下比较多个空间配准的 3D 数据集。没有无损方法的标准重建和配准导致细胞数量误差约 8%。
As imaging, computing, and data storage technologies improve, there is an increasing opportunity for multiscale analysis of three-dimensional datasets (3-D). Such analysis enables, for example, microscale elements of multiple macroscale specimens to be compared throughout the entire macroscale specimen. Spatial comparisons require bringing datasets into co-alignment. One approach for co-alignment involves elastic deformations of data in addition to rigid alignments. The elastic deformations distort space, and if not accounted for, can distort the information at the microscale. The algorithms developed in this work address this issue by allowing multiple data points to be encoded into a single image pixel, appropriately tracking each data point to ensure lossless data mapping during elastic spatial deformation. This approach was developed and implemented for both 2-D and 3D registration of images. Lossless reconstruction and registration was applied to semi-quantitative cellular gene expression data in the mouse brain, enabling comparison of multiple spatially registered 3-D datasets without any augmentation of the cellular data. Standard reconstruction and registration without the lossless approach resulted in errors in cellular quantities of ~ 8%.