Differential expression, differential methylation, and cis-QTL results across Bornean hunter-gatherer and agriculturalist populations — Kusuma et al.

This dataset contains four supplementary data files supporting the analyses reported in Kusuma et al., Rapid convergence toward an agriculturalist regulatory landscape following lifestyle transition in Bornean hunter-gatherers. Data S1 contains gene-level differential expression results from TMM-normalised RNA sequencing data (13,710 genes) across three pairwise contrasts (PBvLDY, PBvPT, PTvLDY), including log₂ fold-change, p-values, and FDR-adjusted p-values. Data S2 contains CpG-level differential methylation results from Illumina EPIC array data (880,992 CpG sites) across the same three pairwise contrasts, including log₂ fold-change of beta values, p-values, and FDR-adjusted p-values. Data S3 contains 914 significant cis-expression quantitative trait loci (cis-eQTLs) identified at FDR-adjusted p < 0.05 from joint analysis of whole genome sequencing and RNA sequencing data. Data S4 contains 20,311 significant cis-methylation quantitative trait loci (cis-methylQTLs) identified at FDR-adjusted p < 0.05 from joint analysis of whole genome sequencing and EPIC array methylation data.