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PGG.Han: the Han Chinese genome database and analysis platform.

Yang Gao^1,2, Chao Zhang¹, Liyun Yuan¹

¹Key Laboratory of Computational Biology, Bio-Med Big Data Center, CAS-MPG Partner Institute for Computational Biology, Shanghai Institute of Nutrition and Health, Shanghai Institutes for Biological Sciences, University of Chinese Academy of Sciences, Chinese Academy of Sciences, Shanghai 200031, China.

Nucleic Acids Research

|October 5, 2019

Summary

The PGG.Han database now archives genomic data from over 114,000 Han Chinese individuals, enhancing global population genomics. This resource provides crucial insights into Han Chinese genetic diversity and supports future genetic studies.

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Area of Science:

Genomics
Population Genetics
Bioinformatics

Background:

The Han Chinese population, the world's largest, is underrepresented in global genomic variability studies.
Existing genomic databases lack comprehensive data on Han Chinese genetic diversity.

Purpose of the Study:

To establish PGG.Han, a central repository for Han Chinese genomic data.
To catalogue the genomic variability within the Han Chinese population.
To provide resources for genetic research on Han Chinese individuals.

Main Methods:

Development of the PGG.Han database.
Archiving whole-genome sequences and genome-wide single-nucleotide variants (SNVs) from 114,783 Han Chinese individuals (Han100K).
Inclusion of samples from 33 Chinese administrative divisions and Singapore.

Main Results:

The PGG.Han database contains genomic data from 114,783 Han Chinese individuals.
The database offers visualization of genetic structure, allele frequencies, and ancestry inference.
It provides a Han-Chinese-specific reference panel for genotype imputation and control data for GWAS.

Conclusions:

PGG.Han significantly enhances the representation of Han Chinese genomics in global research.
The database serves as a valuable resource for understanding population structure and conducting genetic association studies.
Freely accessible online tools facilitate data analysis and visualization for researchers worldwide.