Genome wide map of High-salt Recovered Sequences (HRS) in mouse embryonic stem cells (ESC). Genome wide map of High-salt Recovered Sequences (HRS) in mouse embryonic stem cells (ESC)

We have developed the HRS-seq method (High-salt Recovered Sequences-sequencing), a straightforward genome-wide approach whereby we isolated and sequenced genomic regions associated with large high-salt insoluble RNP complexes. Using mouse embryonic stem cells (ESC), we showed that HRS are over-represented into the active A chromosomal compartment. The vast majority of HRS-associated genes are very highly expressed. They include both cell type-specific genes, like pluripotency genes, and housekeeping genes, like histone and snRNA genes that are central components of Histone Locus Bodies and Cajal bodies. We conclude that large, high-salt insoluble, RNP complexes including nuclear bodies are associated to the active A chromosomal compartment. Overall design: We perform a triplicate HRS-seq experiment in mouse E14Tg2a ESC