PMID- 27524804
OWN - NLM
STAT- MEDLINE
DCOM- 20180116
LR  - 20180127
IS  - 2059-2310 (Electronic)
IS  - 2059-2302 (Linking)
VI  - 88
IP  - 1-2
DP  - 2016 Jul
TI  - HLA genotyping in the clinical laboratory: comparison of next-generation 
      sequencing methods.
PG  - 14-24
LID - 10.1111/tan.12850 [doi]
AB  - Implementation of human leukocyte antigen (HLA) genotyping by next-generation 
      sequencing (NGS) in the clinical lab brings new challenges to the laboratories 
      performing this testing. With the advent of commercially available HLA-NGS typing 
      kits, labs must make numerous decisions concerning capital equipment and address 
      labor considerations. Therefore, careful and unbiased evaluation of available 
      methods is imperative. In this report, we compared our in-house developed HLA NGS 
      typing with two commercially available kits from Illumina and Omixon using 10 
      International Histocompatibility Working Group (IHWG) and 36 clinical samples. 
      Although all three methods employ long range polymerase chain reaction (PCR) and 
      have been developed on the Illumina MiSeq platform, the methodologies for library 
      preparation show significant variations. There was 100% typing concordance 
      between all three methods at the first field when a HLA type could be assigned. 
      Overall, HLA typing by NGS using in-house or commercially available methods is 
      now feasible in clinical laboratories. However, technical variables such as 
      hands-on time and indexing strategies are sufficiently different among these 
      approaches to impact the workflow of the clinical laboratory.
CI  - (c) 2016 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.
FAU - Profaizer, T
AU  - Profaizer T
AD  - ARUP Institute for Clinical and Experimental Pathology, Department of Pathology, 
      University of Utah School of Medicine, Salt Lake City, UT 84132, USA.
FAU - Lazar-Molnar, E
AU  - Lazar-Molnar E
AD  - ARUP Institute for Clinical and Experimental Pathology, Department of Pathology, 
      University of Utah School of Medicine, Salt Lake City, UT 84132, USA.
FAU - Close, D W
AU  - Close DW
AD  - ARUP Institute for Clinical and Experimental Pathology, Department of Pathology, 
      University of Utah School of Medicine, Salt Lake City, UT 84132, USA.
FAU - Delgado, J C
AU  - Delgado JC
AD  - ARUP Institute for Clinical and Experimental Pathology, Department of Pathology, 
      University of Utah School of Medicine, Salt Lake City, UT 84132, USA.
FAU - Kumanovics, A
AU  - Kumanovics A
AD  - ARUP Institute for Clinical and Experimental Pathology, Department of Pathology, 
      University of Utah School of Medicine, Salt Lake City, UT 84132, USA.
LA  - eng
PT  - Comparative Study
PT  - Journal Article
DEP - 20160814
PL  - England
TA  - HLA
JT  - HLA
JID - 101675570
RN  - 0 (HLA Antigens)
SB  - IM
MH  - Alleles
MH  - Gene Library
MH  - Genotype
MH  - Genotyping Techniques/instrumentation/*standards
MH  - HLA Antigens/*classification/genetics/immunology
MH  - High-Throughput Nucleotide Sequencing/methods
MH  - Histocompatibility Testing/instrumentation/methods/*standards
MH  - Humans
MH  - Molecular Sequence Annotation/*standards
MH  - Polymerase Chain Reaction/methods
MH  - Reproducibility of Results
MH  - Sequence Analysis, DNA/*statistics & numerical data
MH  - Time Factors
OTO - NOTNLM
OT  - human leukocyte antigens (HLA)
OT  - next-generation sequencing (NGS)
OT  - paired-end sequencing
OT  - size selection
EDAT- 2016/08/16 06:00
MHDA- 2018/01/18 06:00
CRDT- 2016/08/16 06:00
PHST- 2016/03/28 00:00 [received]
PHST- 2016/06/16 00:00 [revised]
PHST- 2016/07/18 00:00 [accepted]
PHST- 2016/08/16 06:00 [entrez]
PHST- 2016/08/16 06:00 [pubmed]
PHST- 2018/01/18 06:00 [medline]
AID - 10.1111/tan.12850 [doi]
PST - ppublish
SO  - HLA. 2016 Jul;88(1-2):14-24. doi: 10.1111/tan.12850. Epub 2016 Aug 14.