Information
CeGaT´s HLA sequencing service offers reliable and accurate insights into HLA types. Our service covers all steps from DNA extraction to data analysis. With our long-standing expertise in the diagnostic field, our clients benefit from strict quality control standards and therefore high quality results.
Start your project now
We are happy to discuss sequencing options and find a solution specifically tailored to your sequencing project.
In order to sequence your libraries as fast as possible and deliver the best sequencing data, please indicate the library preparation kit, number of pooled samples, barcodes / indices that have been used, and information about custom primers.
Turnaround time
Sequencing data are delivered within 15 – 20 working days.
A fast track option is available upon request.
Delivery
Your sequencing data will be available for download from one of our servers (FTAPI or SFTP). Upon request, as well as for large sample batches, data can also be delivered via external hard drive or uploaded to your own server.
Storage
The original samples and, if applicable, the isolated nucleic acids will be stored at CeGaT for a period of 3 months after data delivery.
Data will be irrevocably deleted after 5 months.
Bioinformatics
- For HLA class I typing based on WES, OptiType algorithm is used for data evaluation.
- For HLA class I and HLA class II typing based on Panel Sequencing, HLA analysis is performed with Assign TruSight HLA analysis software (Illumina).
- You will receive the HLA typing results in an Excel (.xlsx) and Text (.txt) file. Raw data will be provided as demultiplexed and adapter trimmed in fastq.gz files.
Technical Information
The Human Leucocyte Antigen (HLA) system is a group of genes encoding proteins that determine the human specific immune response. This region is highly polymorphic and contains six classical genes: class I HLA-A, -B and -C, and class II HLA-DRB1, -DQB1 and -DPB1. Furthermore, the HLA region is known to be associated with more than 100 multifactorial, complex diseases mainly of inflammatory and autoimmune pathogenesis.
In order to find out more about the functions and complex interactions of the HLA system, next-generation sequencing (NGS) based HLA typing can be very helpful. For instance, it can identify HLA-matched donor-recipient pairs for transplantation, facilitate individual therapy response using pharmacogenetics, or provide information on specific responses for immunotherapy of cancer.
CeGaT offers two HLA typing options:
HLA class I typing
Analysis is performed with a special algorithm (OptiType) based on Whole Exome Sequencing data.
HLA type
HLA class I (A, B, C)
Species
Human
DNA quality
High molecular weight DNA
Protocol
Whole Exome Sequencing (Twist Bioscience)
Evaluation software
OptiType
Sequencing technology
Illumina NovaSeq 6000
Read length
2 x 100 bp
Output
50x mean coverage
Sequencing data
FASTQ
HLA report
XLS, PDF
Combined HLA class I and HLA class II typing
Sequencing libraries are generated with the TruSight HLA Panel (Illumina). Data evaluation is done with the Assign TruSight HLA software (Illumina).
HLA type
HLA class I (A, B, C), HLA class II (DR, DQ, DP)
Species
Human
DNA quality
High molecular weight DNA
Protocol
TruSight HLA Sequencing Panel (Illumina)
Evaluation software
Assign TruSight HLA
Sequencing technology
Illumina MiSeq
Read length
2 x 150 bp
Output
100x mean coverage
Sequencing data
FASTQ
HLA report
XLS, PDF
