RT Journal Article
SR Electronic
T1 Accurate typing of class I human leukocyte antigen by Oxford nanopore sequencing
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 178590
DO 10.1101/178590
A1 Liu, Chang
A1 Xiao, Fangzhou
A1 Hoisington-Lopez, Jessica
A1 Lang, Kathrin
A1 Quenzel, Philipp
A1 Duffy, Brian
A1 Mitra, Robi David
YR 2017
UL http://biorxiv.org/content/early/2017/08/20/178590.abstract
AB 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 immunological compatibility between organ donors and recipients, but the platform’s high error rate makes it challenging to type alleles with clinical-grade accuracy. Here, we developed and validated Athlon, an algorithm that iteratively scores nanopore reads mapped to a hierarchical database of HLA alleles to arrive at a consensus diploid genotype; Athlon achieved a 100% accuracy in class I HLA typing at high resolution.