Fig. 1: e2MPRA overview.
From: Simultaneous epigenomic profiling and regulatory activity measurement using e2MPRA
a Designed cCRE libraries are associated with barcode sequences and cloned into reporter plasmids. b The plasmid libraries are packaged into lentivirus and infected into cells to allow genomic integration and enrichment for epigenetic analyses. c RNA barcodes (for lentiMPRA) and Tn5-tagmented DNA fragments (for ATAC and CUT&Tag) are extracted from infected cells. Genomic DNA is also extracted to estimate integration frequency. d Extracted samples are amplified with unique molecular identifiers (UMIs) and sequenced to quantify genomic integration frequency for each cCRE and regulatory and epigenetic activity. e LentiMPRA activity is calculated by RNA/DNA barcode count. For ATAC and CUT&Tag, epigenetic activity is calculated by dividing the number of Tn5-tagged fragments (enriched CRE counts) by the genomic integration frequency of each CRE (inserted CRE counts). This normalization accounts for differences in lentiviral integration efficiency across CREs.
