Fig. 5: Single nucleus RNAseq analysis and differential abundance analysis of neurons in HD show correlations to astrocytic states.
From: Multi-omic analysis of Huntington’s disease reveals a compensatory astrocyte state
A UMAP plot of nucleus accumbens and caudate neuronal subtypes. B Dot plot of select gene markers for the striatal neuronal subtypes in (A). C UMAP plot of cingulate neuronal subtypes. D Dot plot of select gene markers for cingulate neuronal subtypes in (C). E Differential abundance analysis comparing the enrichment or depletion of striatal neuronal subtypes in (A) in HD (caudate n = 16, accumbens n = 12) versus control (caudate n = 5, accumbens n = 4). The logFC values from ANCOM-BC linear regression model are shown on the y-axis for each cell type. Stars indicate statistically significant differences (Holm-adjusted p-values < 0.05). Holm-adjusted p-values indicated by stars from left to right are 7.72e−5, 9,76e−3, 3.30e−6, 3.58e−11, 1.99e−16, 3.28e−5, 4.85e−8, 1.33e−6, 2.78e−10. Error bars indicate standard errors. F Similar to E but for cingulate neurons from (C) in HD (n = 19) versus control (n = 9) with Holm-adjusted p-value 1.19e−3. G Heatmap displaying the correlation proportion of fibrous-like and protoplasmic sub-clusters (Fig. 3F, G) – columns, with proportions of select accumbens neuronal sub-clusters – rows. The values in the tile represent the Pearson correlation coefficient and p-values in parentheses. Two-tailed Pearson correlation p values were determined using cor.test(). H Similar to (G) but for select caudate neurons. I Similar to (G) but for a select cingulate neuronal cluster (L5/6 glutamatergic SEMA3E+TSHZ2+) depleted in HD.
