Fig. 8: Defining CA1 subregions (CA1d, CA1i, CA1v, CA1vv) with distinct cell type layers.
From: Laminar organization of pyramidal neuron cell types defines distinct CA1 hippocampal subregions
a, Three dimensional representations of the new mouse HGEA CA1 (left) with segregated subregions (middle) CA1d (light red), CA1i (light green), CA1v (light blue), CA1vv (dark blue) and CA1 HGEA layers (right) CA1_1 (yellow), CA1_2 (purple), CA1_3 (green), and CA1_4 (red) (right); see also Supplementary Movie 1 or use the Schol-AR app. b-e (Left) Expanded images corresponding to HGEA Level 82 in subregions CA1d, CA1i, CA1v, and CA1vv showing the distribution of Lrmp, Ndst4, Trib2, and Peg10 transcripts within the CA1 layers. White dashed lines delineate the CA1 pyramidal cell layer. Scale bar, 20 µm. (Right) Unique gene expression signature violin plots of log-normalized gene expression for Lrmp, Ndst4, Trib2, and Peg10 at CA1d, CA1i, CA1v, and CA1vv subregions at HGEA Level 82. f CA1 topography cell type maps at HGEA Levels 72, 82, 89 showing individual cellular ROIs where each cell is assigned a color (layer 1 = yellow, layer 2 = purple, layer 3 = green, layer 4 = red) based on highest log-normalized gene expression value plotted to the dorsoventral (Y axis) and mediolateral (X axis) anatomical position within the CA1 pyramidal cell layer. Note the laminar distribution of cell type layers at these exemplar rostral-caudal CA1 levels. Each topographic map includes the corresponding gene expression density values shown below the plot. Segmented cell counts for the representative levels are: Level 72, 1,120 cells; Level 82, 5341 cells; Level 89, 2167 cells. Source data are provided as a Source Data file.
