Extended Data Fig. 9: Enucleation broadly shifted visual area neurons to H3 types in medial and lateral areas.
From: Whole-cortex in situ sequencing reveals input-dependent area identity
(A) Example slice images for L6b/CT A-L_2 and L4/5 IT M-L in a representative littermate pair. (B) The laminar distribution of H3 types in VISp. H3 types that were enriched or depleted are shown in dark colors. (C) Cell type mapping (Jaccard index) of cortical H3 types in the enucleated and control littermates to cell types in Cheng, et al.42 with or without dark rearing. (D) The number of cells per cubelet for the top enriched H3 types in VISp. Colors indicate cell counts in each cubelet. (E) AUROC of a nearest neighbor classifier assigning cubelets from control (left) or enucleated (middle) brains to cubelets in reference control brains. The difference in AUROC between the enucleated and the control brains are shown on the right. Orange box highlights the relevant VIS areas (VISp, VISpm, and VISl). (F) Magnified views of flatmaps showing the enriched or depleted fraction of VISl (top) or VISpm (bottom) neighbors for each cubelet. The circled areas indicate VISl, VISp, and VISpm. Enu, enucleated.
