BlastiMer identifies homologies between the putative epitopes identified by EpiMatrix and any protein sequence on file at GenBank . As a standard practice at EpiVax, any peptide that shares greater than 80% identity with peptides contained in the human proteome is eliminated from consideration. As it turns out, there are many epitopes that are conserved between pathogens and self. Another factor that may play a role in the induction of auto-immunity is what is called “heterologous immunity” or T cell response to epitopes that cross-react with self . The BlastiMer program automates the process of submitting sequences to BLAST engine at NCBI (www.ncbi.nlm.nih.gov/blast). By default, BlastiMer BLASTs sequences against all non-redundant GenBank CDS translations, PDB, SwissProt, PIR, and PRF.
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