Allele frequency net 2015 update: new features for HLA epitopes, KIR and disease and HLA adverse drug reaction associations

By F. González-Galarza, L. Takeshita, E. J. M. Santos, Felicity Kempson, Maria Helena Thomaz Maia, Andréa Luciana Soares da Silva, André Luiz Teles e Silva, G. Ghattaoraya, A. Alfirevic, Andrew R. Jones and 1 more. Nucleic Acids Res., 2014

742 citations recorded by the source corpus.

It has been 12 years since the Allele Frequency Net Database (AFND; http://www.allelefrequencies.net) was first launched, providing the scientific community with an online repository for the storage of immune gene frequencies in different populations across the world. There have been a significant number of improvements from the first version, making AFND a primary resource for many clinical and scientific areas including histocompatibility, immunogenetics, pharmacogenetics and anthropology studies, among many others. The most widely used part of AFND stores population frequency data (alleles, genes or haplotypes) related to human leukocyte antigens (HLA), killer-cell immunoglobulin-like receptors (KIR), major histocompatibility complex class I chain-related genes (MIC) and a number of cytokine gene polymorphisms. AFND now contains >1400 populations from more than 10 million healthy individuals. Here, we report how the main features of AFND have been updated to include a new section on ‘HLA epitope’ frequencies in populations, a new section capturing the results of studies identifying HLA associations with adverse drug reactions (ADRs) and one for the examination of infectious and autoimmune diseases associated with KIR polymorphisms—thus extending AFND to serve a new user base in these growing areas of research. New criteria on data quality have also been included.

Subfields: Immunology, Pharmacology

View Paper: https://www.semanticscholar.org/paper/83f60d303893260364c6b54ed8b06f5069f22bfc

How researchers see this paper

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

In Immunology

Citations in the corpus

The Immune Epitope Database and Analysis Resource in Epitope Discovery and Synthetic Vaccine Design (2017, methodology): “The population coverage tool (80) calculates the fraction of individuals that are predicted to respond to a given set of epitopes with known MHC restriction, based on HLA genotypic frequencies from http://allelefrequencies.net (81) assuming no linkage disequilibrium between HLA loci.”
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).”