Fig. 5

A subset of T1- and T2-LADs are invariant across cell types. A (Left) LAD assignments across chromosomes 1 and 5 compared across the atlas. T1-LADs in dark purple, T2-LADs in light purple, nonLADs in gray. Arrows indicate example genes located in invariant T1- and T2-LADs. (Right, top) Genome browser LB1 tracks of the OR10K1 locus, located in an invariant T1-LAD. (Right, bottom) Genome browser LB1 tracks of the PAIP1 locus, located in an invariant T2-LAD. GO categories associated with these genes are shown in Additional file 7: Table 4. Relative LB1 enrichment (Y-axis) is indicated on the first track and is consistent across all tracks shown on the right. B Percent of invariant LADs across random comparisons from 2 to 12 cell types shows decreased LAD invariance as cell type numbers increase, with T1-LADs being more invariant than T2-LADs, when stratified by LAD subtype. Lines represent means and colored ribbons represent standard deviation. Beige line represents T1- and T2-LADs combined. C Cell type pair comparisons of T1-LAD and T2-LAD variation show significantly higher invariance for T1-LADs across all possible comparisons compared to T2-LADs. T-test was used to calculate significance. D Comparison of genome-wide invariance of HMM calls in all combinations of 4 cell types, with the non-progenitor-related mesoderm cell types marked by a red line at the 96th percentile of the distribution