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. Author manuscript; available in PMC: 2015 May 12.
Published in final edited form as: Cold Spring Harb Protoc. 2012 Feb 1;2012(2):150–161. doi: 10.1101/pdb.top067843

Figure 2. Construction of a VirtualEmbryo.

Figure 2

Images from hundreds of embryos were grouped into temporal cohorts and each cohort registered based on a common pair-rule marker gene, shown in red. Expression patterns of many other genes stained in different embryos were thus brought into a common frame. Temporal correspondence between registered cohorts produces the VirtualEmbryo atlas of multiple genes over multiple times (A). The accuracy of the VirtualEmbryo was demonstrated by plotting the co-expression of gt and eve for a set of cells along the anterior boarder of eve stripe 2, which are known to be repressed by gt (B).

A plot of the co-expression of gt and eve in embryos co-stained for eve and gt shows a clear anti-correlation (C). A plot of the co-expression of gt and eve for these cells in embryos co-stained for eve-ftz and gt-ftz and registered using ftz, show the same anti-correlation (D). However, a plot of co-expression of gt and eve in embryos co-stained for eve-ftz and gt-ftz which were only coarsly registered is much less accurate and does not reveal the anti-correlation (E).