SNEP: SNP-derived epitope prediction program for minor H antigens

Immunogenetics. 2005 Dec;57(11):816-20. doi: 10.1007/s00251-005-0054-5. Epub 2005 Dec 10.

Abstract

The single nucleotide polymorphism (SNP)-derived Epitope Prediction program (SNEP) is now available to the public. It predicts minor histocompatibility antigens (miHAgs), which are T-cell epitopes containing polymorphic spots, from proteins listed in the SWISS-PROT database. SNEP recognizes polymorphisms (termed VARIANT or CONFLICT in SWISS-PROT) and predicts potential T-cell epitopes within a chosen distance around the polymorphic residue. The prediction algorithm is based on the SYFPEITHI T-cell epitope prediction program. SNEP is able to search for proteins according to their accession numbers, sequence stretches or gene names, for example. The predictions are available for several human leucocyte antigen class I and class II allelic products, which allow for a rapid and precise evaluation of potential miHAgs within polymorphic antigens.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Amino Acid Sequence
  • Data Interpretation, Statistical
  • Databases, Protein
  • Epitopes, T-Lymphocyte / genetics*
  • HLA Antigens / genetics
  • Humans
  • Minor Histocompatibility Antigens / genetics*
  • Molecular Sequence Data
  • Polymorphism, Single Nucleotide*
  • Predictive Value of Tests
  • Software*

Substances

  • Epitopes, T-Lymphocyte
  • HLA Antigens
  • Minor Histocompatibility Antigens