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Workflow for experiments comparing two methods of analyzing reporter expression. Following transfection, an aliquot of cells is analyzed by flow cytometry. From the remaining cells, RNA is isolated and an aliquot is subjected to Illumina sample preparation and sequencing. FM-HCR analysis of fluorescent reporter expression is compared with HCR-Seq analysis of reporter transcript expression, measured as RPKM. See also Tables S1–S5.
