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Peer-reviewedCC BYFrontiers in genetics

GERBase: an online tool for high-resolution HLA allele and haplotype frequencies and linkage disequilibrium analysis in a Brazilian population.

  • Jose Samuel da Silva1
  • Gustavo Vinicius Alves1
  • Joao Henrique Coelho Campos1
  • Gisele Fabianne Rampim1
  • Alberto Cardoso Martins Lima1
  • Maria Gerbase-DeLima1
  • Renato de Marco1,2
  1. 1Instituto de Imunogenética, Associação Fundo de Incentivo à Pesquisa (IGEN/AFIP), São Paulo, Brazil.
  2. 2Nephrology Division, Universidade Federal de São Paulo, São Paulo, Brazil.
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Abstract

GERBase is a web tool that provides family-phased, high-resolution Human Leukocyte Antigen (HLA) allele and haplotype frequencies together with linkage disequilibrium (LD) metrics. The tool supports haplotype blocks defined by the user's query, as well as stratification by self-reported race or visualization of the total admixed population. For analysis, HLA alleles were grouped by antigen recognition domain (ARD), while the web tool retained the ability to discriminate between alleles within the same group. The database contains 17,260 haplotypes from unrelated candidates for hematopoietic cell or kidney transplantation, typed at IGEN (São Paulo, Brazil), phased by segregation analysis in family studies rather than statistically inferred; 9,026 haplotypes (52.3%) are phased across all nine classical loci, and the remainder across at least two. Allele frequencies in GERBase closely track those reported for the Brazilian donor registry in the Common, Intermediate, and Well-Documented (CIWD)-Brazil catalog (r = 0.9988; P < 0.0001 across 238 alleles). This tool can be used in the daily practice of HLA laboratories, including the investigation of allele dropout, the optimization of virtual crossmatching when donor HLA typing is incomplete, and the enhancement of donor prioritization for allogeneic hematopoietic cell transplantation. GERBase is available at https://www.igen.org.br/gerbase/, does not require registration and is free to use.

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Cite

BibTeXRIS
BibTeX
@article{silva2026gerbase,
  title = {{GERBase: an online tool for high-resolution HLA allele and haplotype frequencies and linkage disequilibrium analysis in a Brazilian population.}},
  author = {Jose Samuel da Silva and Gustavo Vinicius Alves and Joao Henrique Coelho Campos and Gisele Fabianne Rampim and Alberto Cardoso Martins Lima and Maria Gerbase-DeLima and Renato de Marco},
  journal = {Frontiers in genetics},
  year = {2026},
  month = oct,
  doi = {10.3389/fgene.2026.1973772},
  url = {https://europepmc.org/article/MED/42948803},
  note = {CC BY},
}
RIS
TY  - JOUR
TI  - GERBase: an online tool for high-resolution HLA allele and haplotype frequencies and linkage disequilibrium analysis in a Brazilian population.
AU  - Jose Samuel da Silva
AU  - Gustavo Vinicius Alves
AU  - Joao Henrique Coelho Campos
AU  - Gisele Fabianne Rampim
AU  - Alberto Cardoso Martins Lima
AU  - Maria Gerbase-DeLima
AU  - Renato de Marco
PY  - 2026
DA  - 2026/10/14
JO  - Frontiers in genetics
DO  - 10.3389/fgene.2026.1973772
UR  - https://europepmc.org/article/MED/42948803
AB  - GERBase is a web tool that provides family-phased, high-resolution Human Leukocyte Antigen (HLA) allele and haplotype frequencies together with linkage disequilibrium (LD) metrics. The tool supports haplotype blocks defined by the user's query, as well as stratification by self-reported race or visualization of the total admixed population. For analysis, HLA alleles were grouped by antigen recognition domain (ARD), while the web tool retained the ability to discriminate between alleles within the same group. The database contains 17,260 haplotypes from unrelated candidates for hematopoietic cell or kidney transplantation, typed at IGEN (São Paulo, Brazil), phased by segregation analysis in family studies rather than statistically inferred; 9,026 haplotypes (52.3%) are phased across all nine classical loci, and the remainder across at least two. Allele frequencies in GERBase closely track those reported for the Brazilian donor registry in the Common, Intermediate, and Well-Documented (CIWD)-Brazil catalog (r = 0.9988; P < 0.0001 across 238 alleles). This tool can be used in the daily practice of HLA laboratories, including the investigation of allele dropout, the optimization of virtual crossmatching when donor HLA typing is incomplete, and the enhancement of donor prioritization for allogeneic hematopoietic cell transplantation. GERBase is available at https://www.igen.org.br/gerbase/, does not require registration and is free to use.
SN  - 1664-8021
ER  -