Extended Data Fig. 1: Taxonomy of identified mouse lemur molecular cell types.
From: A molecular cell atlas of mouse lemur, an emerging model primate
a. Scheme for multi-step scRNA-seq dataset integration, iterative cell clustering of cells with related transcriptomic profiles, and cell type annotation. b. Example tissue UMAP showing scRNA-seq profiles of all cells (dots) from an organ (kidney), integrated using FIRM algorithm across 10x and SS2 datasets (top left) and three individuals (top right). Compartment identities of the cell clusters are shown (bottom left) along with heat maps of expression levels (ln(UP10K+1) for 10x data, ln(CP10K+1) for SS2 data) of the indicated compartment marker genes (bottom right; EPCAM, epithelial; PTPRC, immune lymphoid/myeloid; PECAM, endothelial; COL1A1, stromal). c. UMAP of all 244,081 cells in the atlas integrated by FIRM across the 27 tissues analyzed from four individuals. d. Dot plot showing number of profiled cells (dot intensity shown by heat map scale, central red dot indicates <10 cells) for each of the 768 identified molecular cell types (including 38 hybrid types) plus 24 mixed clusters, isolated from the tissues indicated at left. Molecular cell types in each tissue (rows) are arranged (columns) by cell type designation number and separated by compartment as in Fig. 1e. Horizontal bars, closely related molecular types. +, unknown molecular type.
