ATAC-seq and Stacc-seq bigwigs tracks of mouse preimplantation embryo

ATAC-seq and Stacc-seq bigwigs tracks of mouse preimplantation embryo.

ATAC-seq stages: early 2-cell + alpha amanitin, early 2-cell, 2-cell, 4-cell and 8-cell stage.

Stacc-seq stages: MII oocyte, PN3 zygote, early 2-cell, 2-cell and 8-cell stage.

bigWigs track were generated either by using all the reads (default) or by using only the reads overlapping significant ATAC/pol II binding site (as identified by Genrich, p<0.05). Since in these developmental stages the signal could be quite noisy, we believe that the latter set of bigWigs is more informative.

To generate the latter set of peaks bamCoverage (https://deeptools.readthedocs.io/en/develop/content/tools/bamCoverage.html) was used by providing to --blackListFileName a bed file containing all the regions of the mm10 genome not overlapping any significant ATAC/pol II peaks elongated at both ends by 1 kb.

For further details see methods in Ansaloni et al., 2023, (link here reported upon publication).