I have done HLA typing using exome sequencing data. I have two questions in this regad: (i) Can I discard the extra fields and consider just first four digits (2 fields) or do I need to do any conversion. Example
A01:01:01:01, A01:01:01:02N, A01:01:01:04, A01:01:01:03 etc will become A*01:01 or it requires some other consideration.
(ii) Can I convert the four digit results to G groups or that need to be done before the conversion to the four digits (two fields). The IMGT page of G groups defines:
HLA alleles that have identical nucleotide sequences across the exons encoding the peptide binding domains will be designated by an upper case ‘G’ which follows the first 3 fields of the allele designation of the lowest numbered allele in the group. The group designation will contain a minimum of six digits.
I am not sure if six digits is mandatory or not? Actually I want to compare this new data with some old data and that has information of only four digits (2 fields).
