Extended Data Fig. 10: Correlated cell types between species based on nonnegative least-squares regression.

a, Correlated cell types between each pair of species based on nonnegative least-squares (NNLS) regression (Methods). Shown here is a heat map of the normalized β values between 87 cell types from the mouse, 59 cell types from the zebrafish, and 60 cell types from the frog. The order of cell types listed in the heat map is the same as each cellular trajectory plot (Fig. 2c; Fig. 6b,c). PNS: peripheral nervous system. MHB: midbrain–hindbrain boundary. Di: diencephalon. DEL: deep cell layer. b, The log2-scaled number of all possible pairs, highly ranked pairs, and biologically plausible pairs of cell types evaluated by nonnegative least-squared (NNLS) regression. ‘All possible pairs’ refers to all potential cell type pairings considered; ‘highly ranked pairs’ refer to pairings with β > 1e-4 and that ranked highly from the perspective of both species; ‘plausible pairs’ refer to pairings which were retained after manual review for biological plausibility (Supplementary Table 23). Actual numbers are shown above each bar, with y-axis on log2 scale. c, The log2-scaled number of all possible pairs, highly ranked pairs, and biologically plausible pairs of cell types evaluated on the basis of overlapping, orthologous candidate key TFs. ‘All possible pairs’ refers to all potential cell type pairings considered; ‘highly ranked pairs’ refer to pairings with with estimated relative likelihoods more extreme than 99% of permutations; ‘plausible pairs’ refer to pairings which were retained after manual review for biological plausibility (Supplementary Table 24). Actual numbers are shown above each bar, with y-axis on log2 scale.