The Global Parkinson's Disease Genetics (GP2) Genome Browser
Abstract
Background Large-scale sequencing initiatives have generated extensive genomic resources essential for variant interpretation, yet their effective use often requires bioinformatics expertise. To support identification of Parkinson's disease (PD) risk and disease-causing variants, we developed an open-access, summary-level genomic data browser. Methods We performed uniform joint variant calling to harmonize whole-genome sequencing (WGS) data from AMP-PD Release 4, GP2 Data Releases, and additional controls from the Alzheimer's Disease Sequencing Project. Clinical-exome sequencing (CES) data from GP2 Release 8 was also included. Results The integrated dataset includes 31,665 WGS and 9,559 CES samples, spanning eleven ancestries and over 300 million variants. Conclusion The GP2 Genome Browser is a lightweight, flexible platform providing intuitive gene- and variant-level summaries with ancestry-stratified allele frequencies and functional annotations. It is open source and freely accessible at https://gp2.broadinstitute.org, enabling broad access to PD genomic data and supporting global research efforts.
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Z.-H., F., H., G. R., D., V., F., H. C., S., H., L., L. H., B., M. M., M., L. L., M., S., P., H., A., D. A., G., G. K., A., N. M., B., S. A., C., B., (GP2),, G. P. G. P. (2025). The Global Parkinson's Disease Genetics (GP2) Genome Browser. arXiv preprint arXiv:10.64898/2025.12.29.25343143.
Fang, Z.-H., Grant, R. H., Vitale, D., Hernandez, C. F., Hong, S., Leonard, H. L., Makarious, M. B., Lange, L. M., Solomonson, M., Heutink, P., Dilliott, A. A., Galvelis, K. G., Nalls, M. A., Singleton, A. B., Blauwendraat, C., and Global Parkinson's Genetics Program (GP2),. "The Global Parkinson's Disease Genetics (GP2) Genome Browser." arXiv preprint arXiv:10.64898/2025.12.29.25343143 (2025).