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Personalized Peptide Arrays for Detection of HLA Alloantibodies in Organ Transplantation
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HLA typing by next-generation sequencing - getting closer to reality.

C Gabriel1, D Fürst, I Faé

  • 1Red Cross Transfusion Service of Upper Austria, Linz, Austria.

Tissue Antigens
|January 23, 2014
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Summary

Next generation sequencing (NGS) offers a cost-effective and high-throughput alternative for human leukocyte antigen (HLA) typing. Further development of bioinformatics strategies is needed to fully leverage NGS for complex HLA system analyses.

Keywords:
454 RocheIlluminaIon Torrentambiguitieshuman leukocyte antigen typingnext-generation sequencingsequencing platforms

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Area of Science:

  • Genomics and Bioinformatics
  • Immunogenetics
  • Molecular Biology

Background:

  • Next generation sequencing (NGS) technologies generate large volumes of clonal sequences rapidly.
  • NGS has applications in whole genome sequencing, mutation detection, and increasingly, high-resolution human leukocyte antigen (HLA) typing.
  • The complexity of the HLA system presents significant bioinformatics challenges for NGS applications.

Purpose of the Study:

  • To review the application of different NGS platforms for human leukocyte antigen (HLA) typing.
  • To highlight the advantages and limitations of using NGS for HLA typing.
  • To discuss the economic attractiveness of NGS for HLA typing laboratories.

Main Methods:

  • Review of HLA typing data generated using Roche 454, Illumina MiSeq, and Ion Torrent NGS platforms.
  • Analysis of bioinformatics challenges associated with NGS-based HLA typing.
  • Comparison of NGS with traditional Sanger-based sequencing methods.

Main Results:

  • NGS platforms are becoming increasingly cost-effective for HLA typing laboratories.
  • Specific bioinformatics strategies and software algorithms are required to optimize NGS for HLA typing.
  • Early adopters of NGS for HLA typing have identified distinct advantages and limitations across different platforms.

Conclusions:

  • NGS presents a promising, economically viable approach for high-throughput HLA typing.
  • Overcoming bioinformatics complexities is crucial for the widespread adoption and full potential of NGS in HLA typing.
  • Further development of tailored typing strategies and algorithms will enhance NGS utility in immunogenetics.