Table 4.

Genes identified by TWAS outside of regions identified in the total cutaneous melanoma GWAS meta-analysis. For each gene with a Bonferroni-corrected P-value cutoff in melanocytes (P_TWAS < 3.22 × 10⁻⁶), or skin-related tissue types (P_TWAS < 5.28 × 10⁻⁷) that does not overlap with an existing cutaneous melanoma region we report the local peak cutaneous melanoma variant from the total confirmed plus self-report GWAS meta-analysis, and TWAS Z score. Full results for all genes with a P_TWAS < 1.48 × 10⁻⁵ can be found in Supplementary Tables 10,12. CBWD1 and C9orf66 are within 1 Mb of each other and are merged into a single locus. * RP11-676J12.7 was identified using sun-exposed skin expression data from GTEx (Supplementary Table 12), while all other genes were identified using melanocyte gene expression.

	TWAS		Locus Peak CM Variant
Gene	Z	P	rsID	CHR:BP	CM P
NIPAL3	4.84	1.28 × 10−6	rs2294524	1:24,770,594	2.74 × 10−7
RCAN3	4.83	1.33 × 10−6	rs2294524	1:24,770,594	2.74 × 10−7
NOTCH2	4.81	1.50 × 10−6	rs2793830	1:120,466,108	3.80 × 10−7
PTPN14	−4.84	1.30 × 10−6	rs6693492	1:214,685,978	2.68 × 10−5
CBWD1	−4.81	1.51 × 10−6	rs478882	9:205,964	1.64 × 10−6
C9orf66	5.05	4.48 × 10−7	rs478882	9:205,964	1.64 × 10−6
SYNE2	5.19	2.06 × 10−7	rs12881652	14:64,400,120	2.12 × 10−7
IRX6	−4.80	1.62 × 10−6	rs12919110	16:55,319,789	1.27 × 10−6
RP11-676J12.7*	−5.55	2.79 × 10−8	rs1703824	17:813,324	1.59 × 10−5