Accurate Typing of Human Leukocyte Antigen Class I Genes by Oxford Nanopore Sequencing.

ABSTRACT: Oxford Nanopore Technologies' MinION has expanded the current DNA sequencing toolkit by delivering long read lengths and extreme portability. The MinION has the potential to enable expedited point-of-care human leukocyte antigen (HLA) typing, an assay routinely used to assess the immunologic compatibility between organ donors and recipients, but the platform's high error rate makes it challenging to type alleles with accuracy. We developed and validated accurate typing of HLA by Oxford nanopore (Athlon), a bioinformatic pipeline that i) maps nanopore reads to a database of known HLA alleles, ii) identifies candidate alleles with the highest read coverage at different resolution levels that are represented as branching nodes and leaves of a tree structure, iii) generates consensus sequences

SUBMITTER: Liu C 

PROVIDER: S-EPMC6039791 | biostudies-literature | 2018 Jul

REPOSITORIES: biostudies-literature