GrafGen: distance-based inference of population ancestry for Helicobacter pylori genomes
GrafGen provides a reliable approach for classifying H. pylori ancestry and correcting for bacterial population stratification in GWAS. By enabling more accurate inference of genotype-phenotype associations, the method enhances studies of bacterial genetics and host-pathogen interactions. The underlying algorithm is extensible to other haploid organisms with adequate reference data, broadening its relevance beyond H. pylori.
Authors
- Filipa F. Vale (ORCID: https://orcid.org/0000-0003-4635-0105)
- Charles S. Rabkin (ORCID: https://orcid.org/0000-0002-0053-3806)
- Yumi Jin (ORCID: https://orcid.org/0000-0003-2499-8760)
- Isaac Zhao
- Difei Wang (ORCID: https://orcid.org/0000-0002-1118-658X)
- William Wheeler
Institutions
- National Institutes of Health (US)
- University of Lisbon (PT)
- Information Management Services (US)
- National Cancer Institute (US)
- University of Pennsylvania (US)
- American Axle & Manufacturing (United States) (US)
Publication Details
- Journal
- BMC Bioinformatics
- Published
- 2025-11-26
- DOI
- https://doi.org/10.1186/s12859-025-06294-y
- Primary Topic
- Helicobacter pylori-related gastroenterology studies
- Type
- article
- Field-Weighted Citation Impact
- 0.00