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Populations » HLA Gold Population News
New Gold Population Standards
We have defined new classifications of data (gold, silver and bronze) to
assist users in identifying the most suitable populations for their tasks.
Three important criteria (allele frequency sums to 1, sample size>50,
and four digit resolution) define the gold standard dataset (see Table 1 below).
Silver standard is derived from a less stringent level that users might wish
to consult if the region of the world they are interested in is not well
covered by gold standard data.
Bronze standard includes populations that
do not meet these criteria, but remain in AFND as a record of published
data sets which are likely to require some care when interpreting.
The bronze standard set includes all data at two digit resolution
for which very large sets exist, for example from some Bone
Marrow Donor Registries.
Table 1. Features
and criteria for defining gold, silver and bronze standard datasets.
| Criteria | Gold standard | Silver standard | Bronze standard |
|---|---|---|---|
| Allele frequency | Allele frequencies Sum to 1 (± 0.015; or ± 0.05 if estimated from phenotype frequencies) | Sums to 1 (± 0.015; or ± 0.05 if estimated from phenotype frequencies) | Any that do not match to gold and silver criteria |
| Sample size | ≥50 individuals | Any | Any |
| Resolution | Frequency of all alleles given in at least four digits. Higher resolution adjusted to four digits | Frequency of all alleles given in mixed two/four or more digits. | Any that do not match to gold and silver criteria |
Allele frequency net database (AFND) 2020 update: gold-standard data classification, open access genotype data and new query tools
Gonzalez-Galarza FF, McCabe A, Santos EJ, Jones J, Takeshita LY, Ortega-Rivera ND, Del Cid-Pavon GM, Ramsbottom K, Ghattaoraya GS, Alfirevic A, Middleton D and Jones AR Nucleic Acid Research 2020, 48:D783-8.
Liverpool, U.K.
support@allelefrequencies.net