Three-dimensional chromatin architecture of early-stage mouse embryos reconstructed via recurrence plots

We have previously developed the Recurrence Plot-Based Reconstruction (RPR) method for reconstructing three dimensional (3D) genomic structure from Hi-C data of single haploid cells and diploid cells. Here we used the RPR method to analyzing published scHi-C data of diploid cells derived from early-stage F1 hybrid embryos. As a proof-of-concept for understanding of global developmental changes in chromosomal architecture of early stage embryos. Processed single cell Hi-C (scHi-C) data of early stage mouse embryos were obtained from Collombet et al. (GSE129029).