Processed data for the manuscript "Integrative QTL analysis of gene expression and chromatin accessibility identifies multi-tissue patterns of genetic regulation"

The processed data necessary to perform the analyses described in the manuscript "Integrative QTL analysis of gene expression and chromatin accessibility identifies multi-tissue patterns of genetic regulation". These include gene expression and chromatin accessibility data from 47 strains of Collaborative Cross mice, the founder haplotype mosaics for the strains, and the strain distribution patterns for SNP variants. These allow for haplotype-based QTL and mediation analysis and SNP association analysis. Additionally, the sub-species inheritance, taken from the Mouse Phylogeny Viewer, around the <i>Pik3c2g</i> gene is included because it is shown in the manuscript. Finally, raw QTL results are included.