Extended Data Fig. 6. Validation of RNA MERFISH encoding probe library by comparison of log-normalized of transcripts detected in WT and Irf3-deficient mice.

(a) Number of total probes designed for each transcript in the encoding library used in this study. (b) Quality control metrics of total counts of each transcript detected in WT D3 MI heart and (c) in Irf3-deficient D3 MI heart. (d) Representation of Ifna2 (red), Ifit1 (magenta), and Nppa (blue) in WT and Irf3^−/− D3 MI mice (n = 44,606 cells from 1 WT mouse and 41,953 cells from 1 Irf3^−/− mouse). (e) Comparison of the total mean counts in the raw data and (f) log-normalized counts of detected transcripts for BZ genes such as Nppa, Flnc, Ankrd1 between WT and Irf3-deficient mice.