Fig. 6: Differentially expressed gene (DEG) subclustering approach, and dopaminergic (DA) neuronal-microglial (MG) DEG subclusters showing SUD impacts. | Nature Communications

Fig. 6: Differentially expressed gene (DEG) subclustering approach, and dopaminergic (DA) neuronal-microglial (MG) DEG subclusters showing SUD impacts.

From: Transcriptional impacts of substance use disorder and HIV on human ventral midbrain neurons and microglia

Fig. 6

a Schematic of our approach for identifying DEG subclusters, shown for DA and MG DEGs from our differential expression analysis (DEA) of SUD+HIV− vs. SUD−HIV− donors (“Methods”). b Venn diagram showing color legend used to categorize subcluster DEGs and/or DEG functional groups, based on which DEAs they arise in, specifically for the 4 DEAs assessing impacts of either SUD (left; DEGs in Fig. 2a, g), HIV+u (right; Figs. 3d and 5d), or SUD+HIV+u (middle; Figs. 2b, h, 3a, and 5a). Labels correspond to interpretations for each effect type. c Dendrogram for DEGs from SUD+HIV− vs. SUD−HIV−, showing subclusters for SUD impacts; labels identify subclusters shown in (dg). d, e DEG list and pairwise similarities for subcluster C22S1. d Subcluster C22S1 DEGs, organized by functional group; color at right serves as a group index used with (e); color at left indicates type of effect following (b); bold text denotes DEGs recurring as SUD impacts in SUD+HIV+u donors. e Heatmap showing subcluster C22S1 DEGs arranged by similarity, with element color corresponding to pairwise DEG correlations. Colors at left of DEG names correspond to functional group indices as in (d); DEGs names with pink color at right recur in SUD+HIV+u following (b, d). f, g Similar to (d, e), but for subcluster C22S2.

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