Fig. 3: AC092723.1 mediates the effect of the rs2280381-containing region on IRF8 expression. | Nature Communications

Fig. 3: AC092723.1 mediates the effect of the rs2280381-containing region on IRF8 expression.

From: Lupus enhancer risk variant causes dysregulation of IRF8 through cooperative lncRNA and DNA methylation machinery

Fig. 3

A, B RNA-sequencing and RT-qPCR analysis of the expression of IRF8 and AC092723.1 in U-937 WT clones and KO clones (n = 3, biologically independent samples). WT: rs2280381 wildtype, KO: 138 bp fragment containing the rs2280381 deletion. C The relative location of rs2280381, AC092723.1, and IRF8. D, E CRISPR SAM assay increases AC092723.1 and IRF8 expression by targeting the rs2280381-containing region using specific gRNA in U-937 cells (n = 3, biologically independent experiments). F AC092723.1 expression in different human immune cell subpopulations as measured by RT-qPCR (n = 8, biologically independent samples). G RT-qPCR analysis of AC092723.1 abundance in nuclear and cytoplasmic fractions of primary monocytes. GAPDH, cytoplasmic marker. NEAT1, nuclear marker. H, I RT-qPCR analysis of AC092723.1 and IRF8 expression with or without AC092723.1 knockdown in primary monocytes (n = 3, biologically independent experiments). J, K RT-qPCR analysis of AC092723.1 and IRF8 expression with or without IRF8 knockdown in primary monocytes (n = 3, biologically independent experiments). L RT-qPCR analysis of IRF8 expression after deletion of a partial region of AC092723.1 by CRISPR-Cas9 (n = 3, biologically independent experiments). Data are represented as mean ± SEM, and p values are calculated using an unpaired two-tailed Student’s t test. ns not significant. See also Supplementary Fig. 6.

Back to article page