PMID- 30243890
OWN - NLM
STAT- MEDLINE
DCOM- 20190123
LR  - 20190123
IS  - 1879-1166 (Electronic)
IS  - 0198-8859 (Linking)
VI  - 79
IP  - 11
DP  - 2018 Nov
TI  - Full-length next-generation sequencing of HLA class I and II genes in a cohort 
      from Thailand.
PG  - 773-780
LID - S0198-8859(18)30860-7 [pii]
LID - 10.1016/j.humimm.2018.09.005 [doi]
AB  - The human leukocyte antigen (HLA) genes are highly variable and are known to play 
      an important role in disease outcomes, including infectious diseases. Prior 
      knowledge of HLA polymorphisms in a population usually forms the basis for an 
      effective case-control study design. As a prelude to future disease association 
      analyses, we report HLA class I and II diversity in 334 unrelated donors from a 
      Dengue vaccine efficacy trial conducted in Thailand. Long-range PCR amplification 
      of six HLA loci was performed on DNA extracted from saliva samples. HLA-A, -B, 
      -C, -DPB1, -DQB1 and -DRB1 were genotyped using a next-generation sequencing 
      method presented at the 17th International HLA and Immunogenetics Workshop. In 
      total, we identified 201 HLA alleles, including 35 HLA-A, 57 HLA-B, 28 HLA-C, 24 
      HLA-DPB1, 21 HLA-DQB1 and 36 HLA-DRB1 alleles. Very common HLA alleles with 
      frequencies greater than 10 percent were A *11:01:01, A *33:03:01, A *24:02:01, 
      B *46:01:01, C *07:02:01, C *01:02:01, C *08:01:01, DPB1 *05:01:01, DPB1 *13:01:01, 
      DPB1 *04:01:01, DPB1 *02:01:02, DQB1 *03:01:01, DQB1 *05:02:01, DQB1 *03:03:02, 
      DRB1 *12:02:01, DRB1 *09:01:02, and DRB1 *15:02:01. A novel HLA allele, B *15:450, 
      had a non-synonymous substitution and occurred in more than one donor. 
      Population-based full-length NGS HLA typing is more conclusive and provides a 
      sound foundation for exploring disease association in a given population.
CI  - Copyright (c) 2018. Published by Elsevier Inc.
FAU - Geretz, Aviva
AU  - Geretz A
AD  - U.S. Military HIV Research Program, Walter Reed Army Institute of Research, 
      Silver Spring, MD, USA; Henry M. Jackson Foundation for the Advancement of 
      Military Medicine, Bethesda, MD, USA.
FAU - Ehrenberg, Philip K
AU  - Ehrenberg PK
AD  - U.S. Military HIV Research Program, Walter Reed Army Institute of Research, 
      Silver Spring, MD, USA.
FAU - Bouckenooghe, Alain
AU  - Bouckenooghe A
AD  - Asia-Pacific Clinical Development, Sanofi Pasteur, Singapore.
FAU - Fernandez Vina, Marcelo A
AU  - Fernandez Vina MA
AD  - Stanford Blood Center, Stanford University School of Medicine, Palo Alto, CA, 
      USA.
FAU - Michael, Nelson L
AU  - Michael NL
AD  - U.S. Military HIV Research Program, Walter Reed Army Institute of Research, 
      Silver Spring, MD, USA.
FAU - Chansinghakule, Danaya
AU  - Chansinghakule D
AD  - Asia-Pacific Clinical Development, Sanofi Pasteur, Thailand.
FAU - Limkittikul, Kriengsak
AU  - Limkittikul K
AD  - Department of Tropical Pediatrics, Faculty of Tropical Medicine, Mahidol 
      University, Bangkok, Thailand.
FAU - Thomas, Rasmi
AU  - Thomas R
AD  - U.S. Military HIV Research Program, Walter Reed Army Institute of Research, 
      Silver Spring, MD, USA; Henry M. Jackson Foundation for the Advancement of 
      Military Medicine, Bethesda, MD, USA. Electronic address: 
      rthomas@hivresearch.org.
LA  - eng
PT  - Journal Article
DEP - 20180919
PL  - United States
TA  - Hum Immunol
JT  - Human immunology
JID - 8010936
SB  - IM
MH  - Alleles
MH  - Computational Biology/methods
MH  - Gene Frequency
MH  - *Genes, MHC Class I
MH  - *Genes, MHC Class II
MH  - Genotype
MH  - *High-Throughput Nucleotide Sequencing
MH  - Histocompatibility Testing
MH  - Humans
MH  - Multilocus Sequence Typing
MH  - Quantitative Trait Loci
MH  - Thailand
OTO - NOTNLM
OT  - Dengue
OT  - HLA alleles
OT  - Illumina
OT  - Next-generation sequencing
OT  - Thailand
EDAT- 2018/09/24 06:00
MHDA- 2019/01/24 06:00
CRDT- 2018/09/24 06:00
PHST- 2018/05/31 00:00 [received]
PHST- 2018/08/17 00:00 [revised]
PHST- 2018/09/18 00:00 [accepted]
PHST- 2018/09/24 06:00 [pubmed]
PHST- 2019/01/24 06:00 [medline]
PHST- 2018/09/24 06:00 [entrez]
AID - S0198-8859(18)30860-7 [pii]
AID - 10.1016/j.humimm.2018.09.005 [doi]
PST - ppublish
SO  - Hum Immunol. 2018 Nov;79(11):773-780. doi: 10.1016/j.humimm.2018.09.005. Epub 
      2018 Sep 19.