HLA‐A , ‐B, ‐C, ‐ DRB1 allele and haplotype frequencies of the Korean population and performance characteristics of HLA typing by next‐generation sequencing

HLA ◽  
2020 ◽  
Author(s):  
Dong Wook Jekarl ◽  
Gun Dong Lee ◽  
Jae Bin Yoo ◽  
Jung Rok Kim ◽  
Haein Yu ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Performance Characteristics ◽  
Hla Typing ◽  
Korean Population ◽  
Next Generation ◽  
Drb1 Allele ◽  
Haplotype Frequencies ◽  
And Performance ◽  
Generation Sequencing

scholarly journals Allele and haplotype frequencies of human leukocyte antigen-A, -B, -C, -DRB1, -DRB3/4/5, -DQA1, -DQB1, -DPA1, and -DPB1 by next generation sequencing-based typing in Koreans in South Korea

PLoS ONE ◽  
2021 ◽  
Vol 16 (6) ◽  
pp. e0253619
Author(s):  
In-Cheol Baek ◽  
Eun-Jeong Choi ◽  
Dong-Hwan Shin ◽  
Hyoung-Jae Kim ◽  
Haeyoun Choi ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Dna Sequencing ◽  
Human Leukocyte ◽  
Hla Typing ◽  
Next Generation ◽  
Genetic Population ◽  
Exon 2 ◽  
Next Generation Dna Sequencing ◽  
Haplotype Frequencies ◽  
Generation Sequencing

Allele frequencies and haplotype frequencies of HLA-A, -B, -C, -DRB1, -DRB3/4/5, -DQA1, -DQB1, -DPA1, and -DPB1 have been rarely reported in South Koreans using unambiguous, phase-resolved next generation DNA sequencing. In this study, HLA typing of 11 loci in 173 healthy South Koreans were performed using next generation DNA sequencing with long-range PCR, TruSight® HLA v2 kit, Illumina MiSeqDx platform system, and Assign™ for TruSight™ HLA software. Haplotype frequencies were calculated using the PyPop software. Direct counting methods were used to investigate the association with DRB1 for samples with only one copy of a particular secondary DRB locus. We compared these allele types with the ambiguous allele combinations of the IPD-IMGT/HLA database. We identified 20, 40, 26, 31, 19, 16, 4, and 16 alleles of HLA-A, HLA-B, HLA-C, HLA-DRB1, HLA-DQA1, HLA-DQB1, HLA-DPA1, and HLA-DPB1, respectively. The number of HLA-DRB3/4/5 alleles was 4, 5, and 3, respectively. The haplotype frequencies of most common haplotypes were as follows: A*33:03:01-B*44:03:01-C*14:03-DRB1*13:02:01-DQB1*06:04:01-DPB1*04:01:01 (2.89%), A*33:03:01-B*44:03:01-C*14:03 (4.91%), DRB1*08:03:02-DQA1*01:03:01-DQB1*06:01:01-DPA1*02:02:02-DPB1*05:01:01 (5.41%), DRB1*04:05:01-DRB4*01:03:01 (12.72%), DQA1*01:03:01-DQB1*06:01:01 (13.01%), and DPA1*02:02:02-DPB1*05:01:01 (30.83%). In samples with only one copy of a specific secondary DRB locus, we examined its association with DRB1. We, thus, resolved 10 allele ambiguities in HLA-B, -C (each exon 2+3), -DRB1, -DQB1, -DQA1, and -DPB1 (each exon 2) of the IPD-IMGT/HLA database. Korean population was geographically close to Japanese and Han Chinese populations in the genetic distances by multidimensional scaling (MDS) plots. The information obtained by HLA typing of the 11 extended loci by next generation sequencing may be useful for more exact diagnostic tests on various transplantations and the genetic population relationship studies in South Koreans.

scholarly journals Identification of 8-Digit HLA-A, -B, -C, and -DRB1 Allele and Haplotype Frequencies in Koreans Using the One Lambda AllType Next-Generation Sequencing Kit

2021 ◽  
Vol 41 (3) ◽  
pp. 310-317
Author(s):  
Wonho Choe ◽  
Jeong-Don Chae ◽  
John Jeongseok Yang ◽  
Sang-Hyun Hwang ◽  
Sung-Eun Choi ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Next Generation ◽  
Drb1 Allele ◽  
Haplotype Frequencies ◽  
The One ◽  
Generation Sequencing

P034 Next generation sequencing - the ultimate tool for confirmatory HLA typing in cadaveric donors? A case report

2019 ◽  
Vol 80 ◽  
pp. 80
Author(s):  
Ibis T. Hernandez ◽  
Jennifer McCue ◽  
Ana Hernandez ◽  
Ozzarah Ferrer ◽  
Maria Reiger ◽  
...  
Keyword(s):  
Case Report ◽  
Next Generation Sequencing ◽  
Hla Typing ◽  
Next Generation ◽  
Cadaveric Donors ◽  
Generation Sequencing

scholarly journals HLA Genotyping using Next Generation Sequencing

2016 ◽  
Vol 54 (2) ◽  
pp. 98-104
Author(s):  
C. Lucan ◽  
Laura-Ancuta Pop ◽  
A. Florian ◽  
Valentina Pileczki ◽  
B. Petrushev ◽  
...  
Keyword(s):  
Stem Cell ◽  
Next Generation Sequencing ◽  
Brain Tumors ◽  
Stem Cell Transplantation ◽  
Cell Transplantation ◽  
Disease Recurrence ◽  
Hla Typing ◽  
Next Generation ◽  
Poor Outcomes ◽  
Generation Sequencing

Abstract From an oncological perspective, the second most common malignancies in children are brain tumors. Despite the recent therapeutic breakthroughs in this field, concerning surgery, radiotherapy and chemotherapy alike, some cases still have poor outcomes in curability. This is especially the case in patients with high-risk histological types of tumors, and those suffering from residual, remitting and disseminated diseases. Due to the unique neuroanatomical emplacement of brain tumors and their aggressive infiltrative behavior, their total removal remains a demanding task. This can be perceived in the high rates of failure treatment and disease recurrence. Furthermore, the adjacent healthy brain tissue is inevitably damaged in the surgical process of effectively removing these tumors. Thus, stem cell transplantation may be a viable solution for the clinical management of these malignancies, as proven by various recent breakthroughs. In the current concise review, we present the role of next generation sequencing in HLA typing for stem cell transplantation in primary CNS pediatric malignancies.

scholarly journals Next-generation sequencing for HLA typing of class I loci

BMC Genomics ◽  
2011 ◽  
Vol 12 (1) ◽  
Author(s):  
Rachel L Erlich ◽  
Xiaoming Jia ◽  
Scott Anderson ◽  
Eric Banks ◽  
Xiaojiang Gao ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Hla Typing ◽  
Class I ◽  
Next Generation ◽  
Generation Sequencing

scholarly journals Performance Characteristics and Validation of Next-Generation Sequencing for Human Leucocyte Antigen Typing

2016 ◽  
Vol 18 (5) ◽  
pp. 668-675 ◽  
Author(s):  
Eric T. Weimer ◽  
Maureen Montgomery ◽  
Rosanne Petraroia ◽  
John Crawford ◽  
John L. Schmitz
Keyword(s):  
Next Generation Sequencing ◽  
Human Leucocyte Antigen ◽  
Performance Characteristics ◽  
Next Generation ◽  
Generation Sequencing

Target enrichment using capture probes: The future of HLA typing by next generation sequencing?

2015 ◽  
Vol 76 ◽  
pp. 165
Author(s):  
Hayley Hogan ◽  
Rhys Cransberg ◽  
Megan Jordan ◽  
Damian Goodridge ◽  
David Sayer
Keyword(s):  
Next Generation Sequencing ◽  
Hla Typing ◽  
Target Enrichment ◽  
Next Generation ◽  
The Future ◽  
Generation Sequencing
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