HLA-A, -B, -C, -DRB1 and -DQB1 allele and haplotype frequencies in Saudis using next generation sequencing technique

2013 ◽  
Vol 82 (4) ◽  
pp. 252-258 ◽  
Author(s):  
A. H. Hajeer ◽  
M. A. Al Balwi ◽  
F. Aytül Uyar ◽  
Y. AlHaidan ◽  
A. AlAbdulrahman ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Next Generation ◽  
Haplotype Frequencies ◽  
Sequencing Technique ◽  
Dqb1 Allele ◽  
Generation Sequencing

scholarly journals PoolHap: Inferring Haplotype Frequencies from Pooled Samples by Next Generation Sequencing

PLoS ONE ◽  
2011 ◽  
Vol 6 (1) ◽  
pp. e15292 ◽  
Author(s):  
Quan Long ◽  
Daniel C. Jeffares ◽  
Qingrun Zhang ◽  
Kai Ye ◽  
Viktoria Nizhynska ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Next Generation ◽  
Haplotype Frequencies ◽  
Pooled Samples ◽  
Generation Sequencing

scholarly journals Analysis of targeted somatic mutations in pleomorphic carcinoma of the lung using next‐generation sequencing technique

2020 ◽  
Vol 11 (8) ◽  
pp. 2262-2269
Author(s):  
Saki Manabe ◽  
Rika Kasajima ◽  
Shuji Murakami ◽  
Yohei Miyagi ◽  
Tomoyuki Yokose ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Somatic Mutations ◽  
Pleomorphic Carcinoma ◽  
Next Generation ◽  
Sequencing Technique ◽  
Generation Sequencing

Metagenomic Next-Generation Sequencing Technique Helps Identify Cryptococcal Infection in the Rib

2019 ◽  
Vol 9 (4) ◽  
pp. e0367-e0367 ◽  
Author(s):  
Chaofan Zhang ◽  
Chaoxin Wang ◽  
Fei Chen ◽  
Zida Huang ◽  
Xinyu Fang ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Next Generation ◽  
Cryptococcal Infection ◽  
Sequencing Technique ◽  
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 Next Generation Sequencing Technique and Its Application in Plant Virology

2019 ◽  
Vol 8 (2) ◽  
pp. 77-85
Author(s):  
zohreh Davoodi ◽  
jahangir heydarnejad ◽  
Hossein Masoomi ◽  
◽  
◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Next Generation ◽  
Plant Virology ◽  
Sequencing Technique ◽  
Generation Sequencing

Identification of the novel HLA‐DQB1 , allele DQB1 *06:02:44 by next‐generation sequencing

HLA ◽  
2020 ◽  
Vol 97 (1) ◽  
pp. 91-92
Author(s):  
Anastasiia Ananeva ◽  
Nailia Osipova ◽  
Anna Andryushkina ◽  
Elena Shagimardanova
Keyword(s):  
Next Generation Sequencing ◽  
The Novel ◽  
Next Generation ◽  
Dqb1 Allele ◽  
Generation Sequencing
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