Sequencing-Based Typing (SBT) provides the golden standard for the identification of polymorphism among the human leukocyte antigen (HLA) alleles. Several SBT approaches have been published. Updated protocols for HLA-DRB and -DQB were presented and an approach for DQA, covering all exons, validated. The highest level of allele typing can be realized with strategies for resolving allele and genotype ambiguities. Bioinformatics provides the tools for exchange and sharing data with a community standard in XML format.