Fig. 6: Integration of cell morphology data across experiments and technologies.

a UMAP representation of the combined cell morphology space of the basal and apical dendrites of visual cortex neurons profiled with patch-clamp³⁵, and visual and motor cortex neurons profiled with Patch-seq^37,38. The combined dataset consists of 1,662 neurons. The representation is colored by the neuronal type. b The same UMAP representation is colored by the Cre driver line (for patch-clamp cells) or the t-type (for Patch-seq cells). Cells of same t-type but from different Patch-seq dataset, and cells from the corresponding Cre driver line in the patch-clamp dataset, localize in the same regions of the morphology space. c The location of cells from each of the dataset is indicated in red in the UMAP representation of the combined cell morphology space. d UMAP representation of the combined cell morphology space of 883 full neuron reconstructions from the motor and visual cortices profiled with Patch-seq^37,38 and 1139 neurons from the mouse visual cortex with a combination of two-photon microscopy, microtomography, and serial electron microscopy⁴³, 139 of which have been manually annotated by the MICrONS program. The manually annotated neuronal types from the MICrONS dataset localize in the same regions of the morphology space than Patch-seq cells from the corresponding t-type. e The location of cells from each of the datasets is indicated in red in the UMAP representation of the combined cell morphology space. f Refined annotation of 3 Martinotti cells that were manually annotated by the MICrONS program. One of the Martinotti cells presents a distinct morphology and is close in the morphology space to Patch-seq cells of the Sst Chrna2 t-type, while the other two Martinotti cells are closer to Sst Calb2 t-type cells. g Refined annotation of 3 basket cells that were manually annotated by the MICrONS program. One basket cell has a more condensed morphology than the others and is close in the morphology space to Path-seq cells of the Vip Chat Htr1f and Vip Col15a1 Pde1a t-types, while the other two larger basket cells are close to Pvalb Sema3e Kank4 and Pvalb Gpr149 Islr cells.