Table 5. Advantages and disadvantages of a conventional Illumina sequencing-based HLA genotyping assay versus an ONT sequencing-based HLA genotyping assay.

HLA genotyping method	Advantages	Disadvantages
AlloSeq Tx17 (CareDx; Illumina-based)	• Includes all exons for all genes, improving HLA allele calling and resolving ambiguities. • Up to the 4th field (8-digit) resolution. • Also includes the HLA-E, -F, -G, -H, MICA, and MICB genes.	• Time-intensive (days instead of hours) • No real-time sequencing • Need for high capital investment (Illumina sequencing devices) • Short-read data
NanoTYPE (Omixon; ONT-based)	• Turnaround time of hours instead of days • User-friendly workflow with minimal time spent preparing library • Low capital investment (can run on an ONT MinION device of ~1000USD) • Portable (MinION Mk1B device is palm-sized) • Sequencing can be monitored and stopped in real-time once sufficient coverage has been reached	• Limited to the 3rd field (6-digit) resolution • Does not include all exons (more ambiguities) • Does not include all HLA region genes