Journal: bioRxiv

Article Title: Resolving the three-dimensional interactome of Human Accelerated Regions during human and chimpanzee neurodevelopment

doi: 10.1101/2024.06.25.600691

Figure Lengend Snippet: Region containing HACNS52 (GRCh38 coordinates), which forms an active loop with its gene targets ANXA2 and ICE2 in hNSCs. Curved golden lines indicate representative CHiC interactions involving the HAR, and the following CUT&RUN signal tracks are shown from top to bottom: H3K27me3 in blue, H3K27ac in green, CTCF in orange, RAD21 in pink and POLII in red. The overlap between CUT&RUN signal, the HAR and its gene targets is highlighted by dashed black boxes. Data were visualized via the UCSC Genome Browser. (B) Effect of HACNS52 activation (CRISPRa) on gene target expression in hNSCs using two independent guides (G1, G2). Fold-change values are measured by qRT-PCR with respect to gene expression for scrambled guide (ScG), and significance computed using 2-way ANOVA (α = 0.05) followed by Tukey HSD test (* indicates Padj < 0.1 in the Tukey HSD test). (C) Effect of HACNS52 inactivation (CRISPRi) on gene target expression in hNSCs using two independent guides (G1, G2). Fold-change values are measured by qRT-PCR with respect to gene expression for scrambled guide (ScG), and significance is computed in the same manner as in (B) .

Article Snippet: Scrambled guides for both CRISPRa (cat # GE100077) and CRISPRi (cat # GE100086) from Origene Tech were included as controls.

Techniques: Activation Assay, Expressing, Quantitative RT-PCR

Journal: bioRxiv

Article Title: Resolving the three-dimensional interactome of Human Accelerated Regions during human and chimpanzee neurodevelopment

doi: 10.1101/2024.06.25.600691

Figure Lengend Snippet: Region containing the chimpanzee ortholog of HACNS52 (PanTro6), which forms an active loop with its gene targets ANXA2 and ICE2 in cNSCs. CHiC interactions and CUT&RUN signal tracks are shown in the same manner as in . Data were visualized via the UCSC Genome Browser. (B) and (C) Effect of HACNS52 -ortholog activation (CRISPRa) and inactivation (CRISPRi) respectively in cNSCs using two independent guides (G1, G2). Fold-change values are measured by qRT-PCR with respect to gene expression for scrambled guide (ScG), and significance is computed in the same manner as in and .

Article Snippet: Scrambled guides for both CRISPRa (cat # GE100077) and CRISPRi (cat # GE100086) from Origene Tech were included as controls.

Techniques: Activation Assay, Quantitative RT-PCR, Expressing