Extended Data Fig. 6: Enhancer function of HARs in the most accelerated NPAS3 locus.
From: Comparative characterization of human accelerated regions in neurons
a, Left, NPAS3 expression in human and chimpanzee neurons by RT-qPCR assay. Right, NPAS3 expression in human and chimpanzee neurons based on bulk RNA-seq data. n = 8 biological replicates. b, Quantitative effects of HAR96, 2xHAR.142, 2xHAR.122, and HAR144 on NPAS3 expression in human and chimpanzee neurons. P values were calculated based on the two-sided two-sample t-test and adjusted by Benjamini-Hochberg multiple testing correction. The median, upper and lower quantiles are shown by circle and bar. Each dot represents one single cell. n is indicated in Supplementary Table 4d. c, NPAS3 expression following CRISPRi of 2xHAR.142 and its ortholog in human and chimpanzee neurons. d, Characteristics of the transcription factor motifs overlapping with variants in HAR202 versus its chimpanzee ortholog. Colors represent TF enrichment scores based on JASPAR. Strand information and TF motifs related to neurogenesis are shown. h, human; c, chimpanzee. e, Summary of STAT1, 3, 5 A and 5B and BCL6 transcription levels in human and chimpanzee neurons according to bulk RNA-seq. Bar = 10 Kb. f, Anti-BCL6, MEIS2 and PAX5 ChIP-qPCR assay in neurons. P values were calculated based on the two-sided t-test in a, c, and f. Three independent biological replicates per condition were used for each experiment in c and f. All values represent the mean ± SD in a, c, and f.
