Identification of a novel HLA‐A*0278 allele in a Chinese family*

Sun, Ji-Li; Du, Ke‐Ming; Xie, J.‐H.; Ji, Yongchang; Yang, J. H.; Fu, Mingzhe; Sun, Yuchu; Jin, Yunyun; Liu, D.-Z.; Zhao, Tiantian

doi:10.1111/j.1399-0039.2005.00405.x

Cited by 14 publications

(9 citation statements)

References 6 publications

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“…In summary, it is suggested that HLA-A*9203 is the result of a gene conversion between A*0207 and A*1101/ 02 or A*0301, where a putative conversion fragments was localized in nucleotide region 240 -282 of exon 2. Similarly, A*0256, A*0262 and A*0278 (Ji et al, 2005) (Fig. 1a) are also the result of a gene conversion where a nucleotide motif, most likely from A3 or A11, is exchanged with the homologous region of an A*020101 or 0206 backbone.…”

Section: Resultsmentioning

confidence: 99%

A novel HLA‐A2 variant, A*9203, identified by sequence‐based typing

Chu

Lee

Lin

2007

Int J Immunogenetics

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HLA-A*9203, found in Taiwan using sequence-based typing method, was identical to HLA-A*0207 in exon 3 but differed in exon 2 by five nucleotide substitutions at positions 240-282 corresponding to three amino acid changes at codons 62, 66 and 70. Since this substitution motif is also seen in A*11 and A*03, it is likely that a gene conversion event from A*11 or A*03 to a A*0207 backbone may have been the process used in generating HLA-A*9203.

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Section: Resultsmentioning

confidence: 99%

A novel HLA‐A2 variant, A*9203, identified by sequence‐based typing

Chu

Lee

Lin

2007

Int J Immunogenetics

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“…Although the serological specificity of A*02:78 is reported to be A2, ANN placed A*02:78 in A69, A2 and A3. Allele A*02:78 reportedly reacts with anti‐A2 + A28 and anti‐A2 + A69 antisera but not with anti‐A2 or ‐A69 serum alone (Ji et al. , 2005).…”

Section: Discussionmentioning

confidence: 99%

Artificial neural network weights of residues for the serological specificities of HLA

Choi

Park

Sohn

et al. 2011

International Journal of Immunogenetics

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New human leucocyte antigen (HLA) alleles are assigned largely based on their sequence homologies due to lack of information on the serological reactivities. Artificial neural networks (ANNs) have been tested as a possible tool for helping to predict the serology of new alleles in the absence of serological information. However, an ANN analysis per se imparts no information regarding which residues are important in determining serological specificity. To address this issue, we extracted ANN weights of HLA residues. The ANN was trained using 139 HLA-A, 302 HLA-B and 136 HLA-DRB1 alleles, for which serological specificities were assigned in the 2004 Nomenclature Report. When the trained ANN was evaluated using alleles that were contained in the HLA Dictionary 2008 but had not been employed in the training set, the accuracy was 91% (29/32) for HLA-A, 91% (40/44) for HLA-B and 90% (9/10) for HLA-DR. Finally, ANN residue weights were extracted by summing the weights of directly connected ANN nodes. When we assessed the significance of the ANN residue weights by comparing our data with the results of epitope studies conducted by El-Awar and colleagues, we found that the ANN weights tended to be high at the epitopes described by El-Awar et al. Furthermore, the ANN weights extracted in this work could be used to explain ambiguous characteristics of serological specificities to some extent. Our data are thus considered to support the results of the epitope studies conducted by El-Awar and advance our understanding of the ambiguous serological specificities of some alleles.

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“…[10] Each 25 μl PCR reaction mixture contained 250 ng of DNA, 0.2 mmol/L of dNTPs, 2 units of Taq DNA polymerase (Dream Taq TM DNA polymerase, Fermentas), 3.5 mmol/L of MgCl 2, and primer sets at different concentrations [Table 1]. A pair of nucleotides was used to generate a 429 pb PCR fragment from the human growth hormone gene [Table 1][11] which was included as an internal control to avoid false negative results. Amplification was performed in a thermocycler (Gene Amp ® PCR System 9700).…”

Section: Methodsmentioning

confidence: 99%

“…Specific primers were Rh223vf and primer ga51 for T223V [Table 2][14] generating a 164 pb. To avoid false negative results, an internal control amplifying the human growth hormone gene (429 pb) [Table 1][11] was included. Amplifications were carried out with Taq (Invitrogen) in a final volume of 10 μl.…”

Section: Methodsmentioning

confidence: 99%

See 1 more Smart Citation

RHD alleles in the Tunisian population

Ouchari¹,

Jemni-Yaacoub²,

Chakroun³

et al. 2013

Asian J Transfus Sci

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Background:A comprehensive survey of RHD alleles in Tunisia population was lacking. The aim of this study was to use a multiplex RHD typing assay for simultaneous detection of partial D especially with RHD/RHCE deoxyribonucleic acid (DNA) sequence exchange mechanism and some weak D alleles.Materials and Methods:Six RHD specific primer sets were designed to amplify RHD exons 3, 4, 5, 6, 7 and 9. DNA from 2000 blood donors (1777 D+ and 223 D-) from several regions was selected for RHD genotyping using a PCR multiplex assay. Further molecular investigations were done to characterize the RHD variants that were identified by the PCR multiplex assay.Results:In the 1777 D+ samples, only 10 individuals showed the absence of amplification of exons 4 and 5 that were subsequently identified by PCR-SSP as weak D type 4 variants. No hybrid allele was detected. In the 223 D-, RHD amplification of some exons was observed only in 5 samples: 4 individuals expressed only RHD exon 9, and one subject lacking exons 4 and 5. These samples were then screened by PCR-SSPs on d(C) ces and weak D type 4, respectively.Conclusion:The weak D type 4 appears to be the most common D variant allele. We have not found any partial D variant. Findings also indicated that RHD gene deletion is the most prevalent cause of the D- phenotype in the Tunisian population.

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Identification of a novel HLA‐A0278 allele in a Chinese family

Cited by 14 publications

References 6 publications

A novel HLA‐A2 variant, A*9203, identified by sequence‐based typing

A novel HLA‐A2 variant, A*9203, identified by sequence‐based typing

Artificial neural network weights of residues for the serological specificities of HLA

RHD alleles in the Tunisian population

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