Populations � Publication Details

Population: 
   

  

Colombia Bogotá Cord Blood

Polymorphic Region:
HLA

Demographic Data

 
  Ethnic origin: Mestizo
  Geographic Region: South and Central America
  Latitude: 4� 39' N
  Longitude: 73� 52' W
  Family: Parents live at same location
  Urban/Rural: Urban

Sample Data

 
  Sample Size: 1463
  Test date: 2017
  Method(s): NGS
  Source: Other
  Loci typed: A, B, C, DQB1, DRB1
  Additional notes: "Allele frequencies were calculated by direct count and haplotype frequencies were determined by the open-source software Hapl-o-Mat. It was also used to properly merge allele coding and calculating haplotype frequencies with an EM algorithm, using a ε=10e-7 threshold to stop the algorithm. Haplotype frequencies below 10e-6 were not reported. The Hardy-Weinberg equilibrium (HWE) test was assessed using five repetitions in the Arlequin software package. Input parameters for HWE test were 10e6 Markov chain steps and 10e5 dememorization steps. Because AFND cannot take g-group alleles, data were reported in a 2-field format. For example, the A*01:01 allele reported in AFND is actually an A*01:01g allele."
 

Bibliographic Reference

 
  Author(s): Páez-Gutiérrez, Iván Aurelio
  Publication details: Individuals in this study and donors were classified as Mestizo (98.43%) and Afro-colombian (1.57%). Colombian population is divided into four main groups of heritage: Mestizo or non-Native American (defined as a racial mixture among Native American, African and European; 35million, 84.16%), Native American (1.4million, 3.36%), Afro-colombian (4.3million, 10.40%) and Romani (c.a. 5000, 0.01%). Several genetic composition studies show that Colombian population has an European, Native American and African ancestry which changes according to the geographic location.
  Author's e-mail: ipaez@idcbis.org.co
 

Frequency Data

 
    Genotype Data
(download csv)
 

License

 
 
Ambiguity-resolved Genotype Data
(download csv)
 




   

Allele frequency net 2015 update: new features for HLA epitopes, KIR and disease and HLA adverse drug reaction associations.
Gonzalez-Galarza FF, Takeshita LY, Santos EJ, Kempson F, Maia MH, Silva AL, Silva AL, Ghattaoraya GS, Alfirevic A, Jones AR and Middleton D Nucleic Acid Research 2015, 39, 28, D784-8.
Liverpool, U.K.

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