Common and well-documented HLA alleles: 2012 update to the CWD catalogue

S. J. Mack; P. Cano; J. A. Hollenbach; J. He; C. K. Hurley; D. Middleton; M. E. Moraes; S. E. Pereira; J. H. Kempenich; E. F. Reed; M. Setterholm; A. G. Smith; M. G. Tilanus; M. Torres; M. D. Varney; C. E. M. Voorter; G. F. Fischer; K. Fleischhauer; D. Goodridge; W. Klitz; A-M. Little; M. Maiers; S. G. E. Marsh; C. R. Mueller; H. Noreen; E. H. Rozemuller; A. Sanchez-Mazas; D. Senitzer; E. Trachtenberg; Marcelo Fernandez-Vina

doi:10.1111/tan.12093

Common and well-documented HLA alleles: 2012 update to the CWD catalogue

S. J. Mack^*, P. Cano, J. A. Hollenbach, J. He, C. K. Hurley, D. Middleton, M. E. Moraes, S. E. Pereira, J. H. Kempenich, E. F. Reed, M. Setterholm, A. G. Smith, M. G. Tilanus, M. Torres, M. D. Varney, C. E. M. Voorter, G. F. Fischer, K. Fleischhauer, D. Goodridge, W. KlitzA-M. Little, M. Maiers, S. G. E. Marsh, C. R. Mueller, H. Noreen, E. H. Rozemuller, A. Sanchez-Mazas, D. Senitzer, E. Trachtenberg, Marcelo Fernandez-Vina

^*Corresponding author for this work

Research output: Contribution to journal › Article › Academic › peer-review

172 Citations (Web of Science)

Abstract

We have updated the catalogue of common and well-documented (CWD) human leukocyte antigen (HLA) alleles to reflect current understanding of the prevalence of specific allele sequences. The original CWD catalogue designated 721 alleles at the HLA-A, -B, -C, -DRB1, -DRB3/4/5, -DQA1, -DQB1, and -DPB1 loci in IMGT (IMmunoGeneTics)/HLA Database release 2.15.0 as being CWD. The updated CWD catalogue designates 1122 alleles at the HLA-A, -B, -C, -DRB1, -DRB3/4/5, -DQA1, -DQB1, -DPA1 and -DPB1 loci as being CWD, and represents 14.3% of the HLA alleles in IMGT/HLA Database release 3.9.0. In particular, we identified 415 of these alleles as being 'common' (having known frequencies) and 707 as being 'well-documented' on the basis of (similar to)140,000 sequence-based typing observations and available HLA haplotype data. Using these allele prevalence data, we have also assigned CWD status to specific G and P designations. We identified 147/151 G groups and 290/415 P groups as being CWD. The CWD catalogue will be updated on a regular basis moving forward, and will incorporate changes to the IMGT/HLA Database as well as empirical data from the histocompatibility and immunogenetics community. This version 2.0.0 of the CWD catalogue is available online at cwd.immunogenomics.org, and will be integrated into the Allele Frequencies Net Database, the IMGT/HLA Database and National Marrow Donor Program's bioinformatics web pages.

Original language	English
Pages (from-to)	194-203
Journal	Tissue Antigens
Volume	81
Issue number	4
DOIs	https://doi.org/10.1111/tan.12093
Publication status	Published - Apr 2013

Keywords

allele prevalence
common allele
common and well-documented
human leukocyte antigen
sequence-based typing
well-documented allele

Access to Document

10.1111/tan.12093

Cite this

Mack, S. J., Cano, P., Hollenbach, J. A., He, J., Hurley, C. K., Middleton, D., Moraes, M. E., Pereira, S. E., Kempenich, J. H., Reed, E. F., Setterholm, M., Smith, A. G., Tilanus, M. G., Torres, M., Varney, M. D., Voorter, C. E. M., Fischer, G. F., Fleischhauer, K., Goodridge, D., ... Fernandez-Vina, M. (2013). Common and well-documented HLA alleles: 2012 update to the CWD catalogue. Tissue Antigens, 81(4), 194-203. https://doi.org/10.1111/tan.12093

@article{89f74bf96f554a69a23f4eeb18c439a8,

title = "Common and well-documented HLA alleles: 2012 update to the CWD catalogue",

abstract = "We have updated the catalogue of common and well-documented (CWD) human leukocyte antigen (HLA) alleles to reflect current understanding of the prevalence of specific allele sequences. The original CWD catalogue designated 721 alleles at the HLA-A, -B, -C, -DRB1, -DRB3/4/5, -DQA1, -DQB1, and -DPB1 loci in IMGT (IMmunoGeneTics)/HLA Database release 2.15.0 as being CWD. The updated CWD catalogue designates 1122 alleles at the HLA-A, -B, -C, -DRB1, -DRB3/4/5, -DQA1, -DQB1, -DPA1 and -DPB1 loci as being CWD, and represents 14.3% of the HLA alleles in IMGT/HLA Database release 3.9.0. In particular, we identified 415 of these alleles as being 'common' (having known frequencies) and 707 as being 'well-documented' on the basis of (similar to)140,000 sequence-based typing observations and available HLA haplotype data. Using these allele prevalence data, we have also assigned CWD status to specific G and P designations. We identified 147/151 G groups and 290/415 P groups as being CWD. The CWD catalogue will be updated on a regular basis moving forward, and will incorporate changes to the IMGT/HLA Database as well as empirical data from the histocompatibility and immunogenetics community. This version 2.0.0 of the CWD catalogue is available online at cwd.immunogenomics.org, and will be integrated into the Allele Frequencies Net Database, the IMGT/HLA Database and National Marrow Donor Program's bioinformatics web pages.",

keywords = "allele prevalence, common allele, common and well-documented, human leukocyte antigen, sequence-based typing, well-documented allele",

author = "Mack, {S. J.} and P. Cano and Hollenbach, {J. A.} and J. He and Hurley, {C. K.} and D. Middleton and Moraes, {M. E.} and Pereira, {S. E.} and Kempenich, {J. H.} and Reed, {E. F.} and M. Setterholm and Smith, {A. G.} and Tilanus, {M. G.} and M. Torres and Varney, {M. D.} and Voorter, {C. E. M.} and Fischer, {G. F.} and K. Fleischhauer and D. Goodridge and W. Klitz and A-M. Little and M. Maiers and Marsh, {S. G. E.} and Mueller, {C. R.} and H. Noreen and Rozemuller, {E. H.} and A. Sanchez-Mazas and D. Senitzer and E. Trachtenberg and Marcelo Fernandez-Vina",

year = "2013",

month = apr,

doi = "10.1111/tan.12093",

language = "English",

volume = "81",

pages = "194--203",

journal = "Tissue Antigens",

issn = "0001-2815",

publisher = "Wiley-Blackwell",

number = "4",

}

Mack, SJ, Cano, P, Hollenbach, JA, He, J, Hurley, CK, Middleton, D, Moraes, ME, Pereira, SE, Kempenich, JH, Reed, EF, Setterholm, M, Smith, AG, Tilanus, MG, Torres, M, Varney, MD, Voorter, CEM, Fischer, GF, Fleischhauer, K, Goodridge, D, Klitz, W, Little, A-M, Maiers, M, Marsh, SGE, Mueller, CR, Noreen, H, Rozemuller, EH, Sanchez-Mazas, A, Senitzer, D, Trachtenberg, E & Fernandez-Vina, M 2013, 'Common and well-documented HLA alleles: 2012 update to the CWD catalogue', Tissue Antigens, vol. 81, no. 4, pp. 194-203. https://doi.org/10.1111/tan.12093

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T1 - Common and well-documented HLA alleles: 2012 update to the CWD catalogue

AU - Mack, S. J.

AU - Cano, P.

AU - Hollenbach, J. A.

AU - He, J.

AU - Hurley, C. K.

AU - Middleton, D.

AU - Moraes, M. E.

AU - Pereira, S. E.

AU - Kempenich, J. H.

AU - Reed, E. F.

AU - Setterholm, M.

AU - Smith, A. G.

AU - Tilanus, M. G.

AU - Torres, M.

AU - Varney, M. D.

AU - Voorter, C. E. M.

AU - Fischer, G. F.

AU - Fleischhauer, K.

AU - Goodridge, D.

AU - Klitz, W.

AU - Little, A-M.

AU - Maiers, M.

AU - Marsh, S. G. E.

AU - Mueller, C. R.

AU - Noreen, H.

AU - Rozemuller, E. H.

AU - Sanchez-Mazas, A.

AU - Senitzer, D.

AU - Trachtenberg, E.

AU - Fernandez-Vina, Marcelo

PY - 2013/4

Y1 - 2013/4

N2 - We have updated the catalogue of common and well-documented (CWD) human leukocyte antigen (HLA) alleles to reflect current understanding of the prevalence of specific allele sequences. The original CWD catalogue designated 721 alleles at the HLA-A, -B, -C, -DRB1, -DRB3/4/5, -DQA1, -DQB1, and -DPB1 loci in IMGT (IMmunoGeneTics)/HLA Database release 2.15.0 as being CWD. The updated CWD catalogue designates 1122 alleles at the HLA-A, -B, -C, -DRB1, -DRB3/4/5, -DQA1, -DQB1, -DPA1 and -DPB1 loci as being CWD, and represents 14.3% of the HLA alleles in IMGT/HLA Database release 3.9.0. In particular, we identified 415 of these alleles as being 'common' (having known frequencies) and 707 as being 'well-documented' on the basis of (similar to)140,000 sequence-based typing observations and available HLA haplotype data. Using these allele prevalence data, we have also assigned CWD status to specific G and P designations. We identified 147/151 G groups and 290/415 P groups as being CWD. The CWD catalogue will be updated on a regular basis moving forward, and will incorporate changes to the IMGT/HLA Database as well as empirical data from the histocompatibility and immunogenetics community. This version 2.0.0 of the CWD catalogue is available online at cwd.immunogenomics.org, and will be integrated into the Allele Frequencies Net Database, the IMGT/HLA Database and National Marrow Donor Program's bioinformatics web pages.

AB - We have updated the catalogue of common and well-documented (CWD) human leukocyte antigen (HLA) alleles to reflect current understanding of the prevalence of specific allele sequences. The original CWD catalogue designated 721 alleles at the HLA-A, -B, -C, -DRB1, -DRB3/4/5, -DQA1, -DQB1, and -DPB1 loci in IMGT (IMmunoGeneTics)/HLA Database release 2.15.0 as being CWD. The updated CWD catalogue designates 1122 alleles at the HLA-A, -B, -C, -DRB1, -DRB3/4/5, -DQA1, -DQB1, -DPA1 and -DPB1 loci as being CWD, and represents 14.3% of the HLA alleles in IMGT/HLA Database release 3.9.0. In particular, we identified 415 of these alleles as being 'common' (having known frequencies) and 707 as being 'well-documented' on the basis of (similar to)140,000 sequence-based typing observations and available HLA haplotype data. Using these allele prevalence data, we have also assigned CWD status to specific G and P designations. We identified 147/151 G groups and 290/415 P groups as being CWD. The CWD catalogue will be updated on a regular basis moving forward, and will incorporate changes to the IMGT/HLA Database as well as empirical data from the histocompatibility and immunogenetics community. This version 2.0.0 of the CWD catalogue is available online at cwd.immunogenomics.org, and will be integrated into the Allele Frequencies Net Database, the IMGT/HLA Database and National Marrow Donor Program's bioinformatics web pages.

KW - allele prevalence

KW - common allele

KW - common and well-documented

KW - human leukocyte antigen

KW - sequence-based typing

KW - well-documented allele

U2 - 10.1111/tan.12093

DO - 10.1111/tan.12093

M3 - Article

SN - 0001-2815

VL - 81

SP - 194

EP - 203

JO - Tissue Antigens

JF - Tissue Antigens

IS - 4

ER -