Fig. 8: Model predicts misexpression of pax3 gene due to E-P boundary deletion.
From: Predicting gene expression changes from chromatin structure modification
a The contact matrices derived from cHiC experiments performed in E11.5 limb buds (bottom) and the polymer model (top) for DELBS of pax3 genomic loci from 73 Mb to 79 Mb of chromosome 1 in mESC cell line (Pearson correlation = 0.95); b The contact map for DELB mutant from cHiC experiment (bottom) and polymer simulation (top) for the same genomic loci (Pearson correlation = 0.96). The yellow and red lines show the enhancers and pax3 gene regions in the genomic loci and the arrow represents the interaction change from DELBS to DELB mutants; c The probability distribution of enhancer cluster size around pax3 promoter in DELBS (blue curve) and DELB (green curve) predicted from polymer simulation; d The bar-plot shows the gene expression changes from DELBS to DELB. The red bar shows the gene expression level for DELBS, normalized to one for both simulations and experiment. The blue bar represents the gene expression change determined from experiment and the green bar shows the expression level for pax3 in DELB mutant predicted from the kinetic model. The error bars represent the standard deviation over 100 initial conditions for the simulation prediction.
