… The peptide-binding domain of MHC molecules consists of a groove, with specific amino
acid preferences at different positions. MHC class I, by and large, loads peptides between eight …

… consensus and IEDB recommended) or score (by SYFPEITHI). Initially… and 10-mer peptides
were still very similar among predictors. … Prediction of 11-mers binding to A24 yielded similar …

… We then used MHCCluster to find the functional similarity between any two … Here,
Frank is the ratio of the number of peptides with a prediction score higher than the positive …

… score distribution derived from a large set of random natural peptides) that have a better
score than the peptide … how the similarity between MHC-presented peptides and the self-…

… This result means that ranking of peptide-MHC affinities is similar among the best methods
… Using Kendall-Tau correlation or F1 score as the response variable, we identified several …

… The analysis was done in a similar manner to what we described above, but in addition we
… peptides to multiple MHC molecules, we recommend the use of percentile rank scores rather …

… , on the basis of neighboring MHC bearing the highest sequence similarity. Pan-allele methods
exhibited … The reweighted scores, comprised of MHC protein energy, peptide energy, and …

… MHC molecule pseudo-sequence and the 9-mer peptide cores were encoded using normalized
log-odds scores … a cell line harboring MHC molecules with similar specificity profiles. In …

… Evaluating such predictors, we find that the integrative model with similar weight on affinity …
peptide, the predicted stability score, converted half-life in hours, and a percentile rank score. …

… using the similarity scores in the matrix. … peptide-MHC binding affinity to score MHC class
I peptide presentation, thereby improving the performance in natural MHC-binding peptides …