Extended Data Fig. 7: Continuous transcriptional gradient of Developmental and Injury Response cell states across patients.
a, Distribution of AUC gene signature scores for Developmental (left) and Injury Response (right) programs across all GSC cells (n = 65,655 cells from 28 GSC cultures). Red line marks classification threshold to determine if a given program is active or not. b, Proportion of cells across samples categorized as being resembling Developmental or Injury Response states, as well as intermediate hybrid states. c, Position of cells on the Developmental (x-axis) and Injury Response (y-axis) gradient across all samples (n = 65,655 cells from 28 GSC cultures). Cells are colored by relative expression of the Developmental (red) and Injury Response (black) expression programs. GSC cultures with intermediate scores either contain subpopulations of both subtypes or middling scores for both states. Samples ordered as presented in Fig. 2d. d, Violin plots depicting the distribution of Developmental (red) and Injury Response (black) programs post-fastMNN correction for cells within samples. Samples sorted by increasing median Injury Response program score. e, Pearson correlation of median Developmental (top panel) and Injury Response (bottom panel) between transcriptional program scores derived from the original expression matrix (x-axis) and expression matrix post-fastMNN batch correction (y-axis). Blue line represents linear regression line, shaded grey area represents 95% confidence interval and each dot represents the median raw AUC score per GSC. f, Ridge plots depicting distribution of the difference in Developmental (red) and Injury Response (black) scores (x-axis) across cells within samples (y-axis) (n = 65,655 cells from 28 GSC cultures). Samples ordered as presented in Fig. 2d. Vertical black line represents the median.
