GenDx > HLA typing

HLA typing

Which HLA loci can be sequenced with NGSgo, NGS-Turbo, and NGS-Pronto products?

NGSgo®, NGS-Turbo® and NGS-Pronto® products are available for the following HLA loci: HLA-A, B, C, DRB1, DRB3/4/5, DQA1, DQB1, DPA1, DPB1. Additionally, NGSgo is available for HLA-G (RUO only).

Are there products for non-classical HLA or other genes available?

Yes, we have prototype reagents available for several genes. NGSgo-MoreMX includes HLA-DRA, -E, -F, -G, and -H, and HLA-related genes  MR1, MICA, and MICB. Additionally, singleplex prototypes are available for HLA-E and HLA-F. Amplification strategies are also available for HLA-G, KIR and MICA/MICB (RUO). In addition, there is a prototype amplification strategy for 11 rare blood group systems.

Which NGS products are available for HLA typing?

HLA sequencing using short reads:

  • NGSgo-AmpX v2/3 for single locus amplification of HLA-A/B/C/DRB1/DRB3/ DRB4/DRB5/DQA1/DQB1/DPA1/DPB1 and HLA-G (NGSgo-AmpX v2).
  • NGSgo-MX6-1 for multiplex amplification of HLA-A/B/C/DRB1/DQB1/DPB1
  • NGSgo-MX11-3 for multiplex amplification of HLA-A/B/C/DRB1/DRB3/ DRB4/DRB5/DQA1/DQB1/DPA1/DPB1
  • NGSgo Library Full Kit for library preparation compatible with above mentioned amplification strategies

HLA sequencing using long reads:

  • NGS-Turbo: NGS-TurboAmp & NGS-TurboPrep for multiplex amplification & library preparation of HLA-A/B/C/DRB1/DRB3/DRB4/DRB5/DQA1/DQB1/DPA1/DPB1
    • HLA typing under 3h
  • NGS-Pronto: NGSgo-ProntoAmp & NGS-ProntoPrep for multiplex amplification amplification & library preparation of HLA-A/B/C/DRB1/DRB3/ DRB4/DRB5/DQA1/DQB1/DPA1/DPB1

Software for analysis of sequencing data:

  • NGSengine for NGSgo-AmpX v2/3, NGSgo-MX6-1 and NGSgo-MX11-3
  • NGSengine-Turbo for NGS-Turbo and NGS-Pronto

What is the difference between NGSgo-AmpX v2 and NGSgo-AmpX v3?

Both NGSgo-AmpX kits are designed as single locus amplification strategy featuring exactly the same coverage per locus. The difference between the two kits is the polymerase enzyme. NGSgo-AmpX v2 contains the GenDx-LongMix enzyme, and NGSgo-AmpX v3 uses GenDx-LongZyme. Both enzymes perform well, but GenDx-LongZyme (v3) shows a slightly more robust amplification results with les lot-to-lot variation.

Which sequencing platforms can be used with NGSgo, NGS-Turbo, and NGS-Pronto products?

Further details can be found in the Instructions for Use

  • NGSgo-AmpX v2 is validated with the Illumina and Ion Torrent platforms.
  • NGSgo-AmpX v3 is validated with the Illumina platform.
  • NGSgo-MX6-1 is validated with the Illumina and PacBio platforms.
  • NGSgo-MX11-3 is validated with the Illumina and PacBio platforms.
  • NGS-Turbo is validated with the Oxford Nanopore Technologies platforms MinION Mk1B, Mk1C and GridION Mk1 with R10.4.1 MinION flow cells
  • NGS-Pronto is validated with the Oxford Nanopore Technologies platforms MinION Mk1B, and GridION Mk1 with R10.4.1 MinION flow cells

Are the HLA typing products CE-IVD marked?

The following products are CE-IVD marked:

  • NGSgo-AmpX v2/3
  • NGSgo-MX6-1
  • NGSgo-MX11-3
  • NGSgo Library Full Kit
  • NGSengine

How do I analyze the NGS data to get HLA typing results?

The FastQ files can be analyzed with the software package NGSengine. This is a dedicated software package for NGS HLA typing. NGS-Turbo and NGS-Pronto data is analyzed using NGSengine-Turbo.

How can we share data with GenDx?

Large data files (e.g. FastQ file) can be shared with GenDx through:

Never include personal identifiers of the data

 

Is it possible to use NGSengine or NGSengine-Turbo on a computer without internet?

If not connected to internet, copy the installer to the computer and use the ‘Activate offline’ option when following the on-screen instructions during installation. However, it is highly recommended to use ‘Online Activation’ to receive update notifications within the software.

Our Technical Support team is available if additional help is required.

What are the minimum & recommended system requirements for the software?

This information can be found in the Instructions for Use, by contacting our Sales team, or by visiting the software page on our website.

 

Where can I find the latest installers of the software?

The installers can be downloaded from the download page of our website. A license can be purchased via our Sales team.

How frequently is NGSengine updated?

NGSengine has a biannual release cycle, meaning that a new version update is released twice every year. This update also includes an update of the IMGT reference libraries to include the most recent database.

Where can I find the Certificates of Analysis of my products?

The Certificates of Analysis of products or individual tubes can be downloaded from here.

Where can I find further information on the products?

Do you have Safety Data Sheets for NGSgo?

Yes, the SDS can be downloaded from here.