Assists users to analyze human leukocyte antigen (HLA) genes from whole genome sequence data. ALPHLARD is an algorithm that collects reads potentially generated from HLA genes and is able to determine a pair of HLA types for each of HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, and -DRB1 genes at 6-digit resolution. Moreover, it includes features for detecting rare germline variants not stored in HLA databases and call somatic mutations from paired normal and tumor sequence data.
Human Genome Center, The Institute of Medical Science, The University of Tokyo, Tokyo, Japan; Center for Advanced Medical Innovation, Kyushu University, Fukuoka, Japan; RIKEN Center for Integrative Medical Sciences, Yokohama, Japan; Health Intelligence Center, The Institute of Medical Science, The University of Tokyo, Tokyo, Japan
ALPHLARD funding source(s)
Supported by the Human Genome Center, the Institute of Medical Science and the University of Tokyo.