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Fig. 3 | BMC Biology

Fig. 3

From: Automated identification of the mouse brain’s spatial compartments from in situ sequencing data

Fig. 3

Color-space visualization of UMAP embedding. a Brain gene expression variations: each patch is color coded based on its gene expression profile projected in a 3D space. Patches with similar color have highly correlated gene expression profiles. Brain sections marked with a star in the top left corner are two consecutive sections of the same brain (mouse 1), while brain sections marked with a triangle are from a different mouse (mouse 2), one with location similar to the sections of mouse 1 and the other one from the olfactory region. Scale bar, 1 mm. b Visualization of the patch gene expression profiles in the dimensionality reduction space (three different projections of the same space), showing how the olfactory region (cyan) forms a cluster far away from the more centrally located slices

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