sources
Epitope Mismatch Algorithm
Information about the websites used for the development of HLA-EMMA can be found below.
We have used several articles to locate the polymorphic and solvent-accessible amino acid positions on the different HLA-molecules.
Websites
The IMGT/HLA Database provides a specialist database for sequences of the human major histocompatibility complex (MHC).
The Protein Data Bank provides information about the 3D shapes of proteins, nucleic acids, and complex assemblies.
pHLA3D / HLA Molecules provides a directory with HLA Class I molecules to exam.
Tools
Source for the prediction of protein secondary structure and relative solvent accessibility. The exposed positions of HLA molecules for class I and class II are defined by two tools.
Articles
NetSurfP-2.0: Improved prediction of protein structural features by integrated deep learning.
Klausen et al. 2019 Proteins 87
Porter, Pale Ale 4.0: high-accuracy prediction of protein secondary structure and relative solvent accessibility.
Mirabello et al. 2013 Bioinformatics 29