NeuralCipher Research overview
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Objective We conducted the first large-scale, multi-ancestral investigation of Parkinson’s disease (PD) to examine the impact of genome-wide homozygosity on disease risk and age at onset. Using genotyping, imputed, and whole-genome sequencing (WGS) data from 16,599 PD cases and 13,585 controls across nine ancestral populations from the Global Parkinson’s Genetics Program, we aimed to identify novel regions of homozygosity contributing to PD heritability. Methods We analyzed runs of homozygosity (ROHs) for total length (S ROH ), number (N ROH ), average length (AV ROH ), and genomic inbreeding coefficient (F ROH ). ROHs were intersected with known PD, pallido-pyramidal syndrome, and atypical parkinsonism gene regions and risk loci to assess pleomorphic or pleiotropic contributions. Homozygosity mapping identified ROH overlaps in families, consanguineous individuals, and early-onset PD (EOPD) cases. Results Significant differences in S ROH , AV ROH , N ROH , and F ROH were observed between cases and controls across multiple ancestral groups, persisting after excluding known PD-associated recessive genes. Our analysis revealed distinct patterns of ROH enrichment associated with age at onset, suggesting recessive genetic modifiers of PD across diverse ancestral backgrounds. Homozygosity mapping identified 672 case-exclusive ROH pools, 21 prioritized variants, and 1,300 ROHs enriched in cases. Finally, 167 ROHs in consanguineous individuals and EOPD overlapped known PD and risk loci. Interpretation Our findings suggest that ROH regions contribute to PD heritability in a global context, with a portion attributed to recessive allelic architecture. We developed an open-science framework for unbiased homozygosity mapping. Future studies should use larger, diverse cohorts and WGS data to uncover rare recessive variants linked to PD susceptibility.
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