HLA sequencing using SMRT Technology – High resolution and high throughput HLA genotyping in a clinical setting

Author(s): Cahill, Nicola and Ameur, Adam and Bowman, Brett and Knutsson, Carina and Orebrand, Ulrika and Gyllensten, Ulf and Bengtsson, Mats

Sequence based typing (SBT) is considered the gold standard method for HLA typing. Current SBT methods are rather laborious and are prone to phase ambiguity problems and genotyping uncertainties. As a result, the NGS community is rapidly seeking to remedy these challenges, to produce high resolution and high throughput HLA sequencing conducive to a clinical setting. Today, second generation NGS technologies are limited in their ability to yield full length HLA sequences required for adequate phasing and identification of novel alleles. Here we present the use of single molecule real time (SMRT) sequencing as a means of determining full length/long HLA sequences. Moreover we reveal the scalability of this method through multiplexing approches and determine HLA genotyping calls through the use of third party Gendx NGSengine® software.

Organization: Uppsala University
Year: 2014

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