Building quantitative, three-dimensional atlases of gene expression and morphology at cellular resolution.
Building quantitative, three-dimensional atlases of gene expression and morphology at cellular resolution.
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DOI：
10.1002/wdev.107
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发表时间：
2013-11
影响因子：
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通讯作者：
Biggin, Mark D.
中科院分区：
文献类型：
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作者：
Knowles, David W.;Biggin, Mark D.
动物包括动态三维阵列的细胞，表达基因产物在复杂的空间和时间模式，决定细胞分化和形态发生。对这些发育过程的严格理解需要自动化的方法，这些方法可以定量记录和分析复杂的形态及其相关的细胞分辨率基因表达模式。在这里，我们总结了光学显微镜为基础的方法，建立永久的，定量的地图集，记录这些信息。我们专注于捕获整个胚胎或大面积组织三维数据的实验，通常在多个时间点。我们比较和对比不同方法的优点和局限性，并强调了一些发现。我们强调需要跨学科合作和集成实验管道，将样本制备、图像采集、图像分析、数据库设计、可视化和定量分析联系起来。
Animals comprise dynamic three-dimensional arrays of cells that express gene products in intricate spatial and temporal patterns that determine cellular differentiation and morphogenesis. A rigorous understanding of these developmental processes requires automated methods that quantitatively record and analyze complex morphologies and their associated patterns of gene expression at cellular resolution. Here we summarize light microscopy based approaches to establish permanent, quantitative datasets—atlases—that record this information. We focus on experiments that capture data for whole embryos or large areas of tissue in three dimensions, often at multiple time points. We compare and contrast the advantages and limitations of different methods and highlight some of the discoveries made. We emphasize the need for interdisciplinary collaborations and integrated experimental pipelines that link sample preparation, image acquisition, image analysis, database design, visualization and quantitative analysis.