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Computer-based three-dimensional visualization of developmental gene expression

Abstract

A broad understanding of the relationship between gene activation, pattern formation and morphogenesis will require adequate tools for three-dimensional and, perhaps four-dimensional, representation and analysis of molecular developmental processes. We present a novel, computer-based method for the 3D visualization of embryonic gene expression and morphological structures from serial sections. The information from these automatically aligned 3D reconstructions exceeds that from single-section and whole-mount visualizations of in situ hybridizations. In addition, these 3D models of gene-expression patterns can become a central component of a future developmental database designed for the collection and presentation of digitized, morphological and gene-expression data. This work is accompanied by a web site (http://www.univie.ac.at/GeneEMAC).

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Figure 1: Illustration of the 3D-reconstruction concept.
Figure 2: 3D models of embryonic structures and gene expression patterns, demonstrating reconstructions from three different structural levels.
Figure 3: Precision of the congruencing of sections.
Figure 4: Stereo-images of Myf5 expression in the rostral thorax and forelimb anlagen of a TS18 mouse embryo (148 sections cut at 7 μm; total specimen size, 1.036 mm).
Figure 5: Schematic organization chart for a 3D gene-expression database.

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Correspondence to Johannes Streicher.

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Streicher, J., Donat, M., Strauss, B. et al. Computer-based three-dimensional visualization of developmental gene expression. Nat Genet 25, 147–152 (2000). https://doi.org/10.1038/75989

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