PMID- 28813642
OWN - NLM
STAT- MEDLINE
DCOM- 20180612
LR  - 20180612
IS  - 1879-1166 (Electronic)
IS  - 0198-8859 (Linking)
VI  - 78
IP  - 10
DP  - 2017 Oct
TI  - Buccal swab genomic DNA fragmentation predicts likelihood of successful HLA 
      genotyping by next-generation sequencing.
PG  - 634-641
LID - S0198-8859(17)30464-0 [pii]
LID - 10.1016/j.humimm.2017.08.003 [doi]
AB  - Many clinical human leukocyte antigen (HLA) laboratories are adopting 
      next-generation sequencing (NGS) technology for HLA genotyping. There have been 
      several reports of the cost-benefit and reduction in turn-around-time provided by 
      NGS. Ninety-six percent of buccal swabs and peripheral blood samples had 
      reportable HLA genotyping by NGS. The HLA loci most likely to fail genotyping 
      from buccal swabs were DQB1, DPB1, and DPA1. Successful buccal swab samples had 
      significantly less genomic DNA fragmentation compared to buccal swab samples that 
      were unsuccessful. Increasing sequencing depth of coverage for heavily fragmented 
      samples rescued HLA genotyping. This information provides laboratories with a 
      quality assurance parameter that reduces the amount of repeat NGS needed to 
      achieve high-resolution HLA genotyping. This information should further reduce 
      laboratory and patient costs for HLA genotyping.
CI  - Copyright (c) 2017 American Society for Histocompatibility and Immunogenetics. 
      Published by Elsevier Inc. All rights reserved.
FAU - Montgomery, Maureen C
AU  - Montgomery MC
AD  - UNC Hospitals, HLA Laboratory, Chapel Hill, NC 27514, United States.
FAU - Petraroia, Rosanne
AU  - Petraroia R
AD  - UNC Hospitals, HLA Laboratory, Chapel Hill, NC 27514, United States.
FAU - Weimer, Eric T
AU  - Weimer ET
AD  - UNC Hospitals, HLA Laboratory, Chapel Hill, NC 27514, United States; UNC-Chapel 
      Hill School of Medicine, Department of Pathology & Laboratory Medicine, Chapel 
      Hill, NC 27514, United States. Electronic address: eric_weimer@med.unc.edu.
LA  - eng
PT  - Journal Article
DEP - 20170813
PL  - United States
TA  - Hum Immunol
JT  - Human immunology
JID - 8010936
RN  - 0 (HLA Antigens)
SB  - IM
MH  - Cost-Benefit Analysis
MH  - Costs and Cost Analysis
MH  - *DNA Fragmentation
MH  - Diagnostic Errors
MH  - *Genotype
MH  - HLA Antigens/*genetics
MH  - High-Throughput Nucleotide Sequencing
MH  - Histocompatibility Testing/economics/*methods
MH  - Humans
MH  - Likelihood Functions
MH  - Mouth Mucosa/*physiology
MH  - Predictive Value of Tests
MH  - Prognosis
MH  - Quality Assurance, Health Care
MH  - Tissue Donors
OTO - NOTNLM
OT  - Buccal swab
OT  - HLA
OT  - NGS
OT  - gDNA fragmentation
EDAT- 2017/08/17 06:00
MHDA- 2018/06/13 06:00
CRDT- 2017/08/17 06:00
PHST- 2017/05/01 00:00 [received]
PHST- 2017/08/07 00:00 [revised]
PHST- 2017/08/08 00:00 [accepted]
PHST- 2017/08/17 06:00 [pubmed]
PHST- 2018/06/13 06:00 [medline]
PHST- 2017/08/17 06:00 [entrez]
AID - S0198-8859(17)30464-0 [pii]
AID - 10.1016/j.humimm.2017.08.003 [doi]
PST - ppublish
SO  - Hum Immunol. 2017 Oct;78(10):634-641. doi: 10.1016/j.humimm.2017.08.003. Epub 
      2017 Aug 13.