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Evaluation of GenDx Protocol for HLA NGS Genotyping Using the Ion Torrent Sequencing Platform Cover

Evaluation of GenDx Protocol for HLA NGS Genotyping Using the Ion Torrent Sequencing Platform

By: A. Ormandjieva and  M. Ivanova  
Open Access
|Sep 2023

References

  1. Shiina T, Hosomichi K, Inoko H, Kulski JK. The HLA genomic loci map: Expression, interaction, diversity and disease. J Hum Genet, 2009, 54 (1), 15-39.
  2. Janse van Rensburg WJ, de Kock A, Bester C, Kloppers JF. HLA and disease: Missing clinical data on laboratory request forms – a missed opportunity. South African Med J, 2021, 111 (1), 4.
  3. Kennedy AE, Ozbek U, Dorak MT. What has GWAS done for HLA and disease associations? Int J Immunogenet, 2017, 44 (5), 195-211.
  4. Edgerly CH, Weimer ET. The past, present, and future of HLA typing in transplantation. Methods Mol Biol, 2018, 1802, 1-10.
  5. Mahdi BM. A glow of HLA typing in organ transplantation. Clin Transl Med, 2013, 2 (6), 1-5.
  6. Bravo-Egana V, Sanders H, Chitnis N. New challenges, new opportunities: Next generation sequencing and its place in the advancement of HLA typing. Hum Immunol, 2021, 82 (7), 478-87.
  7. Lind C, Ferriola D, Mackiewicz K, et al. Next-generation sequencing: The solution for high-resolution, unambiguous human leukocyte antigen typing. Hum Immunol, 2010, 71 (10), 1033-42.
  8. Duke JL, Lind C, Mackiewicz K, et al. Determining performance characteristics of an NGS-based HLA typing method for clinical applications. HLA, 2016, 87 (3), 141-52.
  9. De Santis D, Dinauer D, Duke J, et al. 16th IHIW: Review of HLA typing by NGS. Int J Immunogenet, 2013, 40 (1), 72-6.
  10. Osoegawa K, Montero-Martín G, Mallempati KC, et al. Challenges for the standardized reporting of NGS HLA genotyping: Surveying gaps between clinical and research laboratories. Hum Immunol, 2021, 82 (11), 820-8.
  11. Excoffier L. Arlequin suite ver 3.5: A new series of programs to perform population genetics analyses under Linux and Windows. Mol Ecol Res, 2010, 10, 564-567.
  12. RStudio Team. RStudio: Integrated Development Environment for R. RStudio, PBC, Boston, MA, 2021, http://www.rstudio.com/.
  13. Klasberg S, Surendranath V, Lange V, Schöfl G. Bioinformatics Strategies, Challenges, and Opportunities for Next Generation Sequencing-Based HLA Genotyping. Transfus Med Hemotherapy, 2019, 46 (5), 312-24.
  14. Brown NK, Merkens H, Rozemuller EH, et al. Reduced PCR-generated errors from a hybrid capture-based NGS assay for HLA typing. Hum Immunol, 2021, 82 (4), 296-301.
  15. Naumova Е, Ivanova М. Main tissue compatibility complex – facts, hypotheses, application in medicine. Sofia, Litse, 2006, 13-26.
  16. Zlatev A, Ivanova M, Michailova S, et al. Bulgarian bone marrow donors registry – Past and future directions. Cell Tissue Bank, 2008, 9 (4), 347-51.
  17. Ivanova M, Rozemuller E, Tyufekchiev N, et al. HLA polymorphism in Bulgarians defined by high-resolution typing methods in comparison with other populations. Tissue Antigens, 2002, 60 (6), 496-504.
  18. Gonzalez-Galarza FF, McCabe A, Santos EJM, et al. (2020) Allele frequency net database (AFND) 2020 update: Gold-standard data classification, open access genotype data and new query tools. Nucleic Acids Res, 48 (D1), 783-8.
DOI: https://doi.org/10.2478/amb-2023-0024 | Journal eISSN: 2719-5384 | Journal ISSN: 0324-1750
Language: English
Page range: 11 - 17
Submitted on: Feb 21, 2023
Accepted on: Jun 16, 2023
Published on: Sep 29, 2023
Published by: Sofia Medical University
In partnership with: Paradigm Publishing Services
Publication frequency: 4 issues per year

© 2023 A. Ormandjieva, M. Ivanova, published by Sofia Medical University
This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 License.