HLA Typing from Short-Read Sequencing Data with OptiType

• DOI: 10.1007/978-1-4939-8546-3_15
• Publication Date: 2018-06-01T16:25:45Z
• Authors: András Szolek
• Keywords: HLA Antigens; Histocompatibility Testing; Exome Sequencing; High-Throughput Nucleotide Sequencing; Humans; Sequence Alignment; Alleles; Software

The established standards for HLA genotyping rely on targeted DNA sequencing techniques. However, the increasing abundance of short-read sequencing data has prompted a demand for computational tools capable of HLA typing from general purpose sequencing data as well. OptiType is a software that performs HLA typing from short-read DNA and RNA sequencing data, and this chapter guides the user through its installation and usage.