Table 1 Proportion of nuclei that displayed any TREG candidate or POLR2A puncta. Proportion of nuclei with a non-zero count in the DLPFC snRNA-seq data compared against the mean proportion of non-zero puncta in the nucleus and mean number of puncta observed in the RNAscope data for the candidate TREGs and POLR2A. Beta values are the slope of the linear fit of the number of puncta over ordered cell types and the 95% confidence interval. The standardized beta is the slope of the linear fit of the number of puncta divided by the standard deviation of the number of puncta for each gene. Standardized betas enable the comparison between snRNA-seq and RNAscope data. The standardized beta in snRNA-seq is − 1.33 (− 1.35, − 1.31). With RNAscope, AKT3 is the TREG that most similarly follows the trend across all genes in snRNA-seq (see also Fig. 7). Due to the inability to resolve individual puncta for MALAT1, the observed trend (Additional file 2: Fig. S10) is unreliable
Gene | Prop. non-zero in DLPFC snRNA | Mean prop. non-zero puncta in the nucleus | Mean n puncta | β (95% CI) | Standard deviation | Standardized β (95% CI) |
|---|---|---|---|---|---|---|
AKT3 | 0.92 | 0.88 | 4.09 |  − 5.52 (− 5.55, − 5.49) | 5.18 |  − 1.07 (− 1.07, − 1.06) |
ARID1B | 0.94 | 0.86 | 3.08 |  − 2.63 (− 2.65, − 2.6) | 3.42 |  − 0.77 (− 0.77, − 0.76) |
MALAT1 | 1.00 | 0.98 | 2.07 |  − 1.22 (− 1.24, − 1.21) | 1.53 |  − 0.8 (− 0.81, − 0.79) |
POLR2A | 0.30 | 0.78 | 2.75 |  − 3.49 (− 3.51, − 3.47) | 3.34 |  − 1.05 (− 1.05, − 1.04) |
All genes in snRNA-seq | NA | NA | NA |  − 21,844.07 (− 22,172.45, − 21,515.68) | 15,560.76 |  − 1.33 (− 1.35, − 1.31) |