Using individual barcodes to increase quantification power of massively parallel reporter assays.

ABSTRACT:

Background

Massively parallel reporter assays (MPRAs) are an experimental technology for measuring the activity of thousands of candidate regulatory sequences or their variants in parallel, where the activity of individual sequences is measured from pools of sequence-tagged reporter genes. Activity is derived from the ratio of transcribed RNA to input DNA counts of associated tag sequences in each reporter construct, so-called barcodes. Recently, tools specifically designed to analyze MPRA data were developed that attempt to model the count data, accounting for its inherent variation. Of these tools, MPRAnalyze and mpralm are most widely used. MPRAnalyze models barcode counts to estimate the transcription rate of each sequence. While it has increased statistical power and robustnes

SUBMITTER: Keukeleire P 

PROVIDER: S-EPMC11827149 | biostudies-literature | 2025 Feb

REPOSITORIES: biostudies-literature