Database Commons

a catalog of biological databases

e.g., animal; RNA; Methylation; China

Database information

PGG.Han (Han Chinese Genomes Database)

General information

Description: The Han Chinese Genomes Database (PGG.Han) serves as the central repository of the genomic data of the Han Chinese Genomes Project.
Year founded: 2018
Last update:
Real time : Checking...
Country/Region: China
Data type:
Data object:
Database category:
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Contact information

University/Institution: CAS-MPG Partner Institute for Computational Biology
Address: 320 Yue Yang Road, Shanghai, China 200031
City: Shanghai
Province/State: Shanghai
Country/Region: China
Contact name (PI/Team): Shuhua Xu
Contact email (PI/Helpdesk):

Related Database

Record metadata

Created on: 2019-09-14
Curated by:
Dong Zou [2020-07-08]
Dong Zou [2019-11-14]
Dong Zou [2019-09-14]


All databases:
2503/4656 (46.263%)
Gene genome and annotation:
738/1237 (40.42%)
Genotype phenotype and variation:
339/628 (46.178%)
Total Rank

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PGG.Han: the Han Chinese genome database and analysis platform. [PMID: 31584086]
Gao Y, Zhang C, Yuan L, Ling Y, Wang X, Liu C, Pan Y, Zhang X, Ma X, Wang Y, Lu Y, Yuan K, Ye W, Qian J, Chang H, Cao R, Yang X, Ma L, Ju Y, Dai L, Tang Y, Han100K Initiative, Zhang G, Xu S.

As the largest ethnic group in the world, the Han Chinese population is nonetheless underrepresented in global efforts to catalogue the genomic variability of natural populations. Here, we developed the PGG.Han, a population genome database to serve as the central repository for the genomic data of the Han Chinese Genome Initiative (Phase I). In its current version, the PGG.Han archives whole-genome sequences or high-density genome-wide single-nucleotide variants (SNVs) of 114 783 Han Chinese individuals (a.k.a. the Han100K), representing geographical sub-populations covering 33 of the 34 administrative divisions of China, as well as Singapore. The PGG.Han provides: (i) an interactive interface for visualization of the fine-scale genetic structure of the Han Chinese population; (ii) genome-wide allele frequencies of hierarchical sub-populations; (iii) ancestry inference for individual samples and controlling population stratification based on nested ancestry informative markers (AIMs) panels; (iv) population-structure-aware shared control data for genotype-phenotype association studies (e.g. GWASs) and (v) a Han-Chinese-specific reference panel for genotype imputation. Computational tools are implemented into the PGG.Han, and an online user-friendly interface is provided for data analysis and results visualization. The PGG.Han database is freely accessible via or

Nucleic Acids Res. 2020:48(D1) | 2 Citations (from Europe PMC, 2020-08-08)