Figure 5. Neuron-specific expression quantitative trait loci (eQTL) mapping.
(A) cis eQTLs mapped in single neuronal subtypes (sn-eQTLs) are shown. The top three rows indicate whether the eQTL was mapped pan-neuronally at a 10% false discovery rate (FDR) threshold (row 1), at a 50% FDR threshold (row 2), and whether the sign of the effect estimate (‘effect direction’) was the same in the pan-neuronal and single-cell mapping (row 3). (B) Comparing the effect direction between the sn-eQTL mapping and mapping in a set of neurons excluding the sn-eQTL neuron shows evidence for subtype-specific effects. The number of genes showing the same (‘purple’) or opposite (‘turquoise’) effect directions is shown for genes with pan-neuronal FDR > 50% (top) and <50% (bottom). (C, D) An eQTL with antagonistic effects in two neurons. Higher expression of the gene nlp-21 in the RIM neuron is associated with the N2 allele (C), while higher expression in the RIC neuron is associated with the CB4856 allele (D). In (C) and (D), a linear fit is shown for illustration. All p-values are FDR-corrected. Read counts were normalized to the number of UMIs in each cell and log-transformed. (E) Expression of nlp-21 in the parental dataset. The direction of effect is concordant between the left panel and (C) (RIM neuron) and between the middle panel and (D) (RIC neuron). Horizontal lines are averages.
Figure 5—figure supplement 1. Uniform Manifold Approximation and Projection of 12,468 neurons.
