title: HGPGD: the human gene population genetic difference database.
abstract: Demographic events such as migration, and evolutionary events like mutation and recombination, have contributed to the genetic variations that are found in the human genome. During the evolution and differentiation of human populations, different functional genes and pathways (a group of genes that act together to perform specific biological tasks) would have displayed different degrees of genetic diversity or evolutionary conservatism. To query the genetic differences of functional genes or pathways in populations, we have developed the human gene population genetic difference (HGPGD) database. Currently, 11 common population genetic features, 18,158 single human genes, 220 KEGG (Kyoto Encyclopedia of Genes and Genomes) human pathways and 4,639 Gene Ontology (GO) categories (3,269 in biological process; 862 in molecular function; and 508 in cellular component) are available in the HGPGD database. The 11 population genetic features are related mainly to three aspects: allele frequency, linkage disequilibrium pattern, and transferability of tagSNPs. By entering a list of Gene IDs, KEGG pathway IDs or GO category IDs and selecting a population genetic feature, users can search the genetic differences between pairwise HapMap populations. We hope that, when the researchers carry out gene-based, KEGG pathway-based or GO category-based research, they can take full account of the genetic differences between populations. The HGPGD database (V1.0) is available at http://www.bioapp.org/hgpgd.
authors.affiliation: College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China. jiangyongshuai@gmail.com
authors.forename: Yongshuai
authors.initials: Y
authors.lastname: Jiang
authors.forename: Ruijie
authors.initials: R
authors.lastname: Zhang
authors.forename: Hongchao
authors.initials: H
authors.lastname: Lv
authors.forename: Jin
authors.initials: J
authors.lastname: Li
authors.forename: Miao
authors.initials: M
authors.lastname: Wang
authors.forename: Yiman
authors.initials: Y
authors.lastname: Chang
authors.forename: Wenhua
authors.initials: W
authors.lastname: Lv
authors.forename: Xin
authors.initials: X
authors.lastname: Sheng
authors.forename: Jingjing
authors.initials: J
authors.lastname: Zhang
authors.forename: Panpan
authors.initials: P
authors.lastname: Liu
authors.forename: Jiajia
authors.initials: J
authors.lastname: Zheng
authors.forename: Miao
authors.initials: M
authors.lastname: Shi
authors.forename: Guiyou
authors.initials: G
authors.lastname: Liu
mesh_terms: D030541:Databases, Genetic; D019143:Evolution, Molecular; D014644:Genetic Variation; D015894:Genome, Human; D006801:Humans