Ghavi-Helm Y, Jankowski A, Meiers S, Viales RR, Korbel JO, Furlong EEM.

Nat Genet. 2019 Aug;51(8):1272-1282. doi:10.1038/s41588-019-0462-3

Highly rearranged chromosomes reveal uncoupling between genome topology and gene expression.

Sequencing of balancer chromosomes. Allele-specific RNA-seq, Hi-C and Capture-C. “Genes with changes in their expression have a small but significant enrichment for differential promoter contacts”, but the converse is not true. “Loss of long-range chromatin loops has little impact on gene expression.”