Snowflake: A deep learning-based human leukocyte antigen matching algorithm considering allele-specific surface accessibility.

ABSTRACT: Histocompatibility in solid-organ transplantation has a strong impact on long-term graft survival. Although recent advances in matching of both B-cell epitopes and T-cell epitopes have improved understanding of allorecognition, the immunogenic determinants are still not fully understood. We hypothesized that HLA solvent accessibility is allele-specific, thus supporting refinement of HLA B-cell epitope prediction. We developed a computational pipeline named Snowflake to calculate solvent accessibility of HLA Class I proteins for deposited HLA crystal structures, supplemented by constructed HLA structures through the AlphaFold protein folding predictor and peptide binding predictions of the APE-Gen docking framework. This dataset trained a four-layer long short-term memory bidirectional recu

SUBMITTER: Niemann M 

PROVIDER: S-EPMC9372366 | biostudies-literature | 2022

REPOSITORIES: biostudies-literature