Allele frequency net: a database and online repository for immune gene frequencies in worldwide populations

By F. González-Galarza, S. Christmas, D. Middleton, Andrew R. Jones. Nucleic Acids Res., 2010

758 citations recorded by the source corpus.

The allele frequency net database (http://www.allelefrequencies.net) is an online repository that contains information on the frequencies of immune genes and their corresponding alleles in different populations. The extensive variability observed in genes and alleles related to the immune system response and its significance in transplantation, disease association studies and diversity in populations led to the development of this electronic resource. At present, the system contains data from 1133 populations in 608 813 individuals on the frequency of genes from different polymorphic regions such as human leukocyte antigens, killer-cell immunoglobulin-like receptors, major histocompatibility complex Class I chain-related genes and a number of cytokine gene polymorphisms. The project was designed to create a central source for the storage of frequency data and provide individuals with a set of bioinformatics tools to analyze the occurrence of these variants in worldwide populations. The resource has been used in a wide variety of contexts, including clinical applications (histocompatibility, immunology, epidemiology and pharmacogenetics) and population genetics. Demographic information, frequency data and searching tools can be freely accessed through the website.

Subfields: Genetics, Immunology

View Paper: https://www.semanticscholar.org/paper/e17c936f3bb3fda5129a89f2c641edc52e46487b

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

1. F. González-Galarza
2. András Szolek
3. A. McCabe
4. E. J. M. Santos
5. Marc Sturm
6. L. Takeshita
7. Benjamin Schubert
8. James Jones

Citations in the corpus

• Allele frequency net database (AFND) 2020 update: gold-standard data classification, open access genotype data and new query tools (2019, methodology): “However, in the last 17 years, many more tools have been incorporated into the database, producing a new release in 2011 and an update in 2015, both published in Nucleic Acid Research database issues (17,18).”
• OptiType: precision HLA typing from next-generation sequencing data (2014, methodology): “RNA-Seq data were mapped against the nucleotide CDS reference library; exome sequencing and WGS data were mapped against the genomic nucleotide reference library.”
• Allele frequency net 2015 update: new features for HLA epitopes, KIR and disease and HLA adverse drug reaction associations (2014, methodology): “As described previously (1), the most popular tools in AFND include queries for particular allele/haplotype frequencies (viewed as a table or world map––Figure 1A), or analysis of all allele/haplotype frequencies within a given population or geographic region of the world.”