PMID- 28796439
OWN - NLM
STAT- MEDLINE
DCOM- 20180528
LR  - 20181016
IS  - 2059-2310 (Electronic)
IS  - 2059-2302 (Linking)
VI  - 90
IP  - 5
DP  - 2017 Nov
TI  - A novel analysis strategy for HLA typing using a sequence-specific 
      oligonucleotide probe method.
PG  - 276-283
LID - 10.1111/tan.13114 [doi]
AB  - The technique of reverse sequence-specific oligonucleotide probes (SSOPs) is 
      commonly used in human leukocyte antigen (HLA) typing. In the conventional method 
      for data analysis (exact pattern matching, EPM), the larger is the number of 
      mismatched probes, the longer the time for final typing assignment. A novel 
      strategy, filtering and scoring (FnS), has been developed to easily assign the 
      best-fit allele pair. In the FnS method, candidate alleles and allele pairs were 
      filtered based on (1) subject's ethnicity, and (2) the measured partial reaction 
      pattern with only definitely negative or positive probes. Then, the complete 
      reaction pattern for all probes (CRPoAPs) were compared between the raw sample 
      and expected residual allele pairs to obtain mismatch scores. To compare the FnS 
      and EPM methods, each analysis time (minutes:seconds) for reverse SSOP HLA typing 
      with intermediate resolution (n = 507) was measured. The analysis time with FnS 
      method was shorter than that of the EPM method [00:21 (00:08-01:47) and 01:04 
      (00:15-23:45), respectively, P < .05]. In addition, the analysis time of the FnS 
      method was relatively constant, regardless of the number of mismatched probes. 
      The alternative approach of filtering based only on definite probes (neglecting 
      ethnicity) took a long time for analysis. However, this approach did not 
      compromise the accuracy. The FnS method showed improved accuracy and efficiency 
      of HLA typing in a comprehensive and quantitative comparison between measured and 
      expected CRPoAPs of candidate allele pairs. Therefore, this analysis strategy 
      might be useful in a clinical setting.
CI  - (c) 2017 John Wiley & Sons A/S. Published by John Wiley & Sons Ltd.
FAU - Won, D I
AU  - Won DI
AUID- ORCID: 0000-0002-1983-2515
AD  - Department of Clinical Pathology, Kyungpook National University School of 
      Medicine, Daegu, South Korea.
LA  - eng
PT  - Journal Article
DEP - 20170907
PL  - England
TA  - HLA
JT  - HLA
JID - 101675570
RN  - 0 (HLA Antigens)
RN  - 0 (Oligonucleotide Probes)
SB  - IM
MH  - Base Sequence
MH  - HLA Antigens/metabolism
MH  - Histocompatibility Testing/*methods
MH  - Humans
MH  - Oligonucleotide Probes/*genetics/*metabolism
MH  - Time Factors
MH  - Uncertainty
OTO - NOTNLM
OT  - HLA typing
OT  - analysis strategy
OT  - sequence-specific oligonucleotide probe
OT  - software program
EDAT- 2017/08/11 06:00
MHDA- 2018/05/29 06:00
CRDT- 2017/08/11 06:00
PHST- 2017/04/12 00:00 [received]
PHST- 2017/07/01 00:00 [revised]
PHST- 2017/08/04 00:00 [accepted]
PHST- 2017/08/11 06:00 [pubmed]
PHST- 2018/05/29 06:00 [medline]
PHST- 2017/08/11 06:00 [entrez]
AID - 10.1111/tan.13114 [doi]
PST - ppublish
SO  - HLA. 2017 Nov;90(5):276-283. doi: 10.1111/tan.13114. Epub 2017 Sep 7.