Massively parallel reporter assay for mapping gene-specific regulatory regions at single-nucleotide resolution (opens in new tab)

Precise gene regulation is essential for tissue development and function, yet mapping cis-regulatory modules (CRMs) at high resolution and in specific cell types remains challenging. We introduce two complementary strategies—a locus-specific massively parallel reporter assay (LS-MPRA) and a degenerate MPRA (d-MPRA)—designed to overcome limitations in throughput, resolution, and prior knowledge requirements. LS-MPRA uses BAC-based libraries to densely sample genomic regions, enabling unbiased ...