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Standard Anatomical and Visual Space for the Mouse Retina: Computational Reconstruction and Transformation of Flattened Retinae with the Retistruct Package

Figure 1

Overview of the method. A,

The raw data: a retinal outline from an adult mouse (black), two types of data points (red and green circles) from paired injections into the superior colliculus and a landmark (blue line). B, Retinal outline with nasal pole (N) and cuts marked up. Each pair of dark cyan lines connects the vertices and apex of the four cuts. C, The outline after triangulation (shown by grey lines) and stitching, indicated by cyan lines between corresponding points on the cuts. Di, The initial projection of the triangulated and stitched outline onto a curtailed sphere. The strain of each edge is represented on a colour scale with blue indicating compression and red expansion. Cuts are shown in cyan. Dii, The strain plotted on the flat outline with lines of latitude and longitude superposed. Ei,ii, As Di,ii but after optimisation of the mapping. Fi, The data represented on a polar plot of the reconstructed retina. Mean locations of the different types of data points are indicated by diamonds. The nasal (N), dorsal (D), temporal (T) and ventral (V) poles are indicated. Cuts are shown in cyan. Fii, Data plotted on the flat representation, with lines of latitude and longitude superposed. All scale bars are 1 mm.

Figure 1

doi: https://doi.org/10.1371/journal.pcbi.1002921.g001