Supplementary Figure 2: Reproducibility of the bulk RNA rhTCRseq protocol. | Nature Protocols

Supplementary Figure 2: Reproducibility of the bulk RNA rhTCRseq protocol.

From: RNase H–dependent PCR-enabled T-cell receptor sequencing for highly specific and efficient targeted sequencing of T-cell receptor mRNA for single-cell and repertoire analysis

Supplementary Figure 2

RNA extracted from PBMCs of anonymous donors N1-N5 was analyzed in eight replicates of 10 ng RNA and eight replicates of 40 ng per donor. Replicate results were combined to generate 80- and 320-ng samples. The plots show the clonotype-specific correlations for alpha (a) and beta (b) comparing the 80 ng and 320 ng results for sample N2. Correlation coefficients for the other four samples are reported in Supplementary Table 4. Correlation analysis was limited to comparing higher frequency clonotypes. For each individual, the frequency in the 80-ng results that corresponds to five UMI counts was used as the threshold frequency. Clonotypes in the 80-ng or the 320-ng data above this threshold were used for the correlation analysis. For clonotypes that are above the threshold in one dataset and below the threshold in the other, the actual frequency values below the threshold were used in the comparison.

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