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An Overview of HLA Typing for Hematopoietic Stem Cell Transplantation

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Bone Marrow and Stem Cell Transplantation

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1109))

Abstract

The selection of a related or an unrelated hematopoietic stem cell donor for a patient requires accurate matching of human leukocyte antigen (HLA) genes in order to maximize the beneficial effects of the transplant. There are various different factors a laboratory must consider in order to achieve an HLA type including the number of samples being processed, level of resolution to be achieved, cost of providing the various tests, and turnaround time required. Each method has its advantages and disadvantages, and in most laboratories, a combination of methods may be used.

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References

  1. Warrens A, Lechler R (eds) (2000) HLA in health and disease. Academic, London, pp 139–146

    Google Scholar 

  2. Mallal S, Nolan D, Witt C et al (2002) Association between presence of HLA-B*5701, HLA-DR7, and HLA-DQ3 and hypersensitivity to HIV-1 reverse transcriptase inhibitor abacavir. Lancet 359:727–732

    Article  PubMed  CAS  Google Scholar 

  3. Abi-Rached L, Jobin MJ, Kulkarni S et al (2011) The shaping of modern human immune systems by multiregional admixture with archaic humans. Science 334:89–94

    Article  PubMed Central  PubMed  CAS  Google Scholar 

  4. Klein K (1986) Natural history of the major histocompatibility complex. Wiley, Toronto, ON

    Google Scholar 

  5. Cao K, Chopek M, Fernandez-Vina MA (1999) High and intermediate resolution DNA typing systems for class I HLA-A, B, C genes by hybridization with sequence-specific oligonucleotide probes (SSOP). Rev Immunogenet 1:177–208

    PubMed  CAS  Google Scholar 

  6. Trajanoski D, Fidler SJ (2012) HLA typing using bead-based methods. Methods Mol Biol 882:47–65

    Article  PubMed  CAS  Google Scholar 

  7. Olerup O, Zetterquist H (1992) HLA-DR typing by PCR amplification with sequence-specific primers (PCR-SSP) in 2 hours: an alternative to serological DR typing in clinical practice including donor-recipient matching in cadaveric transplantation. Tissue Antigens 39:225–235

    Article  PubMed  CAS  Google Scholar 

  8. Bunce M, O’Neill CM, Barnardo MC et al (1995) Phototyping: comprehensive DNA typing for HLA-A, B, C, DRB1, DRB3, DRB4, DRB5 & DQB1 by PCR with 144 primer mixes utilizing sequence-specific primers (PCR-SSP). Tissue Antigens 46:355–367

    Article  PubMed  CAS  Google Scholar 

  9. Newton CR, Graham A, Heptinstall LE et al (1989) Analysis of any point mutation in DNA. The amplification refractory mutation system (ARMS). Nucleic Acids Res 17:2503–2516

    Article  PubMed Central  PubMed  CAS  Google Scholar 

  10. van der Vlies SA, Voorter CE, van den Berg-Loonen EM (1998) A reliable and efficient high resolution typing method for HLA-C using sequence-based typing. Tissue Antigens 52:558–568

    Article  PubMed  Google Scholar 

  11. Turner S, Ellexson ME, Hickman HD et al (1998) Sequence-based typing provides a new look at HLA-C diversity. J Immunol 161:1406–1413

    PubMed  CAS  Google Scholar 

  12. Swelsen WT, Voorter CE, van den Berg-Loonen EM (2005) Sequence-based typing of the HLA-A10/A19 group and confirmation of a pseudogene coamplified with A*3401. Hum Immunol 66:535–542

    Article  PubMed  CAS  Google Scholar 

  13. Kotsch K, Wehling J, Blasczyk R (1999) Sequencing of HLA class II genes based on the conserved diversity of the non-coding regions: sequencing based typing of HLA-DRB genes. Tissue Antigens 53:486–497

    Article  PubMed  CAS  Google Scholar 

  14. Sayer DC, Goodridge DM, Christiansen FT (2004) Assign 2.0: software for the analysis of Phred quality values for quality control of HLA sequencing-based typing. Tissue Antigens 64:556–565

    Article  PubMed  CAS  Google Scholar 

  15. Rozemuller EH, Tilanus MG (2000) Bioinformatics: analysis of HLA sequence data. Rev Immunogenet 2:492–517

    PubMed  CAS  Google Scholar 

  16. Shiina T, Suzuki S, Ozaki Y et al (2012) Super high resolution for single molecule-sequence-based typing of classical HLA loci at the 8-digit level using next generation sequencers. Tissue Antigens 80:305–316

    Article  PubMed  CAS  Google Scholar 

  17. Lind C, Ferriola D, Mackiewicz K et al (2012) Filling the gaps—the generation of full genomic sequences for 15 common and well-documented HLA class I alleles using next-generation sequencing technology. Hum Immunol 74:318–324

    Google Scholar 

  18. Liu L, Li Y, Li S et al (2012) Comparison of next generation sequencing systems. J Biomed Biotechnol 2012:251364. doi:10.1155/2012/251364

    PubMed Central  PubMed  Google Scholar 

  19. Moonsamy PV, Williams T, Bonella P et al (2013) High throughput HLA genotyping using 454 sequencing and the Fluidigm Access Array™ system for simplified amplicon library preparation. Tissue Antigens 81:141–149

    Article  PubMed  CAS  Google Scholar 

  20. Eid J, Fehr A, Gray J et al (2009) Real-time DNA sequencing from single polymerase molecules. Science 323:133–138

    Article  PubMed  CAS  Google Scholar 

  21. Maitra RD, Kim J, Dunbar WB (2012) Recent advances in nanopore sequencing. Electrophoresis 33:3418–3428

    Article  PubMed Central  PubMed  CAS  Google Scholar 

  22. Valcarcel D, Sirra J, Wang T et al (2011) One antigen mismatched related versus HLA matched unrelated donor haematopoietic stem cell transplantation in adults with acute leukemia: center for International Blood and Marrow Transplant Research results in the ERA or molecular HLA typing. Biol Blood Marrow Transplant 17:640–648

    Article  PubMed Central  PubMed  CAS  Google Scholar 

  23. Buchler T, Gallardo D, Rodriguez-Luaces M, Pujal JM, Granena A (2002) Frequency of HLA-DPB1 disparities detected by reference strand-mediated conformation analysis in HLA-A, -B, and -DRB1 matched siblings. Hum Immunol 63:139–142

    Article  PubMed  CAS  Google Scholar 

  24. Bioinformatics.NMDP.Org. Policies (www.nmdpresearch.org/HLA/hla_policies.html)

  25. Flomenberg N, Baxter-Lowe LA, Confer D et al (2004) Impact of HLA class I and class II high-resolution matching on outcomes of unrelated donor bone marrow transplantation: HLA-C mismatching is associated with a strong adverse effect on transplantation outcome. Blood 104:1923–1930

    Article  PubMed  CAS  Google Scholar 

  26. Petersdorf EW, Anasetti C, Martin PJ et al (2004) Limits of HLA mismatching in unrelated hematopoietic cell transplantation. Blood 104:2976–2980

    Article  PubMed  CAS  Google Scholar 

  27. Shaw BE, Potter MN, Mayor NP et al (2003) The degree of matching at HLA-DPB1 predicts for acute graft-versus-host disease and disease relapse following haematopoietic stem cell transplantation. Bone Marrow Transplant 31:1001–1008

    Article  PubMed  CAS  Google Scholar 

  28. Fleischauer K, Shaw BE, Gooley T et al (2012) Effect of T-cell-epitope matching at HLA-DPB1 in recipients of unrelated donor haemopoietic cell transplantation: a retrospective study. Lancet Oncol 13:366–374

    Article  CAS  Google Scholar 

  29. Bone Marrow Donors Worldwide (http://www.bmdw.org/). Accessed Feb 2013

  30. Eapen M, Klein JP, Sanz GF et al (2011) Effect of donor–recipient HLA matching at HLA A, B, C, andDRB1 on outcomes after umbilical-cord blood transplantation for leukaemia and myelodysplastic syndrome: a retrospective analysis. Lancet Oncol 12:1214–1221

    Article  PubMed Central  PubMed  CAS  Google Scholar 

  31. Robinson J, Mistry K, McWilliam H, Lopez R, Parham P, Marsh SGE (2011) The IMGT/HLA database. Nucleic Acids Res 39:1171–1176

    Article  CAS  Google Scholar 

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Acknowledgments

Dr. Raymond Fernando and Mr. Franco Tavarozzi are thanked for providing Fig. 2.

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Latham, K., Little, AM., Madrigal, J.A. (2014). An Overview of HLA Typing for Hematopoietic Stem Cell Transplantation. In: Beksaç, M. (eds) Bone Marrow and Stem Cell Transplantation. Methods in Molecular Biology, vol 1109. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4614-9437-9_5

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  • DOI: https://doi.org/10.1007/978-1-4614-9437-9_5

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4614-9436-2

  • Online ISBN: 978-1-4614-9437-9

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