Transcription factor codes patterning neuronal groundplans of the cerebrum

Statistics and reproducibility Supplementary Table 5 lists the number of independent samples, brains or hemispheres that we examined. All samples are biological replicates. Results were consistent across samples. In cases in which lineages were labelled, numbers indicate total samples collected; however, in some cases a given lineage might not be labelled in every brain. Data grouped together in the same row are from the same samples. If a figure panel is not labelled here, the data are present in its legend. Number of samples and statistics for Extended Data Fig. 9 For Extended Data Fig. 9e , n = 17 control, 11 mutant and 4 non-induced hemispheres (TfAP-2 RNAi versus control P 0) either br , pdm3 or mamo but not the other two (expression level == 0). Pairwise Pearson correlation coefficients between the 36 birth-order TFs ( Imp , Syp and fru ) based on 12 h APF expression data were computed (cor, method = pearson), and values were hierarchically clustered and visualized using ggcorplot in Fig. 3d . For visualization, Imp was manually set as the first value in an attempt to order cells on the basis of their birth order. We used the UCell package 107 to calculate the gene set enrichment scores at the single-cell level of the following genes: (1) VAChT , DAT , VGlut , Gad1 ; (2) fru ; and (3) rpr, skl and grim . …