TREM2 and Alzheimer disease: Although we had limited power to detect DETs associated with AD given the relatively small number of samples (Supplementary Figs. 16 and 17), we found that the dominant TREM2 transcript (LR.TREM2.25) was significantly upregulated in cortex tissue from AD patients compared to non-AD controls (log2FC = 3.23, Welch’s t-test: P = 1.13 × 10−2, Fig. 8E), paralleling the association with tau pathology observed in TG mice and driving the overall gene-level increase in TREM2 gene expression observed in AD (log2FC = 3.31, Welch’s t-test: P = 5.72 × 10−3, Fig. 8F).