Profiling the Immune Epigenome across Global Cattle Breeds

ATAC-seq, RRBS, WGBS, RNA-seq, and WGS of immune cells from global cattle breeds.
## Access ##
This dataset is held in the Edinburgh DataVault, directly accessible only to authorised University of Edinburgh staff.

We have generated assay for transposase-accessible chromatin using sequencing (ATAC-seq) and reduced representation bisulfite sequencing (RRBS) datasets for seven immune cell types across three diverse cattle breeds. Holstein Friesian, N’Dama and Nelore cattle were selected to represent the European taurine, African taurine and indicine cattle lineages, respectively. Gene expression data for six immune cell types from Holstein Friesian cattle and three cell types from Nelore cattle have also been generated. Additionally, whole genome bisulfite sequencing (WGBS) data were generated for two Holstein Friesian monocyte samples to compare with the RRBS datasets. To test the accuracy of digital cytometry methods to deconvolute mixed immune cell populations based on their methylation profiles we generated in vivo cellular mixtures and red blood cell lysed blood samples that were analysed by RRBS. Finally, we performed whole genome sequencing of each of the animals.