VN1K is a pangenome-informed multi-omics and phenomics resource for the Vietnamese population
Year: 2026
Type: article
Study design: Observational Study
Abstract: The population of Vietnam remains underrepresented in global genomic databases. Here, we present VN1K, a resource of multi-omics and phenotypic information for 1011 unrelated Vietnamese individuals. We present high-depth short-read whole-genome sequencing data for all samples along with various -omics datasets. Using a high-sensitivity variant detection pipeline, which includes a pangenome graph reference and a deep-learning framework, we identify approximately 42 million variants with 7 million short insertions/deletions and 90 thousand structural variants. VN1K also features a whole-genome methylation profile based on long read sequencing. We create a genotype imputation panel with high accuracy on the Vietnamese population, allowing us to identify variants with significantly different allele frequencies in the Vietnamese population compared to other populations. We establish the functional relevance of some of these variants, particularly those in genes associated with genetic disorders, immune diseases, and drug responses, by integrating the allele frequency differences with known genotype-phenotype associations and clinical annotations. Further, we map various loci related to hepatitis B virus infection, triglyceride levels, LDL-C levels, serum glucose levels, HbA1c levels, and levels of two liver enzymes (ALT and AST). The VN1K dataset is accessible via genome.vinbigdata.org, an integrated platform with both linear and graph-based genome browsers.
Source: Nature Communications
Authors: Trang T. H. Tran, Tham H. Hoang, Mai H. Tran, Tien M. Pham, Nam N. Nguyen, Nam N. Nguyen, Giang M. Vu, Vinh C. Duong, Quang T. Vu, Nguyen T. Nguyen, Nguyen T. Nguyen, Hien Q. Vu, Trang M. Nguyen, Thien K. Nguyen, Sang V. Nguyen, Toan Dang, Hoang Nguyen, Tuan Do, Cuong Le, Dat T. Nguyen, Hung T. T. Nguyen, Nam Q. Le, Quang-Huy Nguyen, Quang-Huy Nguyen, Linh T. Le, Thang Pham, Duc M. Vu, Huong T. T. Le, Tho D. Ngo, Liem T. Nguyen, Yen Hoang, Dat X. Dao, Giang H. Phan, Thinh Tran, Quang Tran, Chi Trung Ha, Loan Nguyen, Hung N. Luu, Minh Dao, Ly Le, Vinh S. Le, Nguyen Thuy Duong, Quan Nguyen, Quan Nguyen, Duc-Hau Le, Van Vu, Nam S. Vo
Institutions: Hanoi Medical University, VinUniversity, Vinmec - VinUni Institute of Immunology, The University of Queensland, Institute for Molecular Bioscience, Vinmec Research Institute of Stem Cell and Gene Technology, Vietnam National University, Hanoi, VNU University of Science, Trường Đại học Đông Đô, Vinmec Healthcare System, The University of Texas MD Anderson Cancer Center, Houston Methodist, Cornell University, Weill Cornell Medicine, Vingroup (Vietnam), VNU University of Engineering and Technology, Viện Sinh học, Vietnam Academy of Science and Technology, Trường Đại học Khoa học và Công nghệ Hà Nội, Hanoi University of Science and Technology
Language: English
Subfield: Genetics
Domain: Life Sciences
Open Access status: gold
Estimated APC paid: $6,990
OpenAlex ID: W7170050329