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Genome-wide homeostatic regulation of R-loops by the dual RNA-DNA topoisomerase, topoisomerase III-β (TOP3B) II

GSE284535 Homo sapiens Expression profiling by high throughput sequencing 4 samples Submitted 2025/09/04 Platform GPL20301
Summary
We report the mapping of R-loops across the human genome in wild-type and TOP3B-KO HCT116 and HT1080 cells by performing DNA: RNA Immunoprecipitation followed by high-throughput sequencing (DRIP-seq). Cellular depletion of TOP3B globally increases the intensity of pre-existing R-loops. The enriched R-loop peaks in TOP3B-KO cells are both in intergenic and genic regions, including protein-coding and non-coding RNA genes. Long genes and genes with high exon-intron junctions accumulate more R-loops. Global transcription analyses indicate that increased R-loop signals do not significantly change transcript level in TOP3B-KO cells. However, increased R-loops in TOP3B-KO cells cause stabilization of G4-quadruplexs and increased gH2AX foci. Altogether, these results demonstrate that TOP3B is needed for the removal of deleterious R-loops that lead to genomic breaks.
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Also filed as BioProject PRJNA1199483 and SRA study SRP552102. Searching any of these in the dataset finder brings you back here.

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