PGG SNV

PGG SNV compiles human single nucleotide variation (SNV) data and provides population-genetic and molecular-evolutionary analyses, with emphasis on under-studied indigenous populations in Asia to support comparative and evolutionary studies.

Key Features:

• Extensive Data Archive: Contains 265 million SNVs from 220,147 present-day genomes and 1,018 ancient genomes, including 1,009 newly sequenced genomes representing 977 global populations.
• Emphasis on Indigenous Asian Populations: Prioritizes inclusion of under-investigated indigenous populations in Asia to enhance representation of global genetic diversity.
• Population Genetic Diversity and Evolutionary Parameters: Provides estimates of population genetic diversity and various evolutionary parameters for comparative analyses.
• Heatmap Plot of Population Differentiation: Visualizes genetic differentiation across populations to identify population-specific variation.
• Word Map Plot of Allele Frequency Distributions: Displays allele frequency distributions across populations to summarize variant prevalence and patterns.
• Manhattan Plot of Natural Selection Signals: Identifies genomic regions with signals of natural selection across populations.
• Heatmap Plot for Linkage Disequilibrium Analysis: Visualizes linkage disequilibrium patterns to assess non-random associations between loci.

Scientific Applications:

• Population Genetics: Enables analysis of allele frequencies, population differentiation, and genetic diversity across contemporary and ancient genomes.
• Molecular Evolution: Supports detection and interpretation of natural selection signals and evolutionary parameter estimation.
• Anthropological Genomics: Facilitates comparative studies of human demographic history and population structure, with temporal perspective from ancient genomes.
• Medical Genetics: Aids investigation of potential links between SNVs and disease susceptibility or resistance across diverse populations.

Methodology:

Computational visualization and analysis methods include heatmap plots for population differentiation and linkage disequilibrium, word map plots for allele frequency distributions, and Manhattan plots for natural selection signals.