B Cell
MHC I
MHC II
For Alphapapillomavirus 9, the linear B-cell epitopes were predicted using LBtope software. LBtope uses Support Vector Machine (SVM) based models. It is an efficient method with an accuracy of ~81% built on a large database of experimentally verified B-cell epitopes as well as non-epitopes. To identify reliable potent epitopes, the cut-off was set for - 70% for accurate prediction.
Id | Epitope | SVM Score | Probabilty % of Correct Prediction |
|---|---|---|---|
Major Histocompatibility Complex (MHC) class I and MHC class II binders are also known as a distinctive class of epitopes or T cell epitopes were analyzed for potential vaccine design. For binding predictions, the IEDB Analysis Resource Consensus tool was used.
MHC-I binders were analyzed by employing IEDB recommended consensus methods (ANN, SMM and CombLlb). According to the IEDB guideline, IC values nM are considered to produce results having high affinity. Other than taking IC50 values as a selection parameter, result values with a score > 0.5 and a low percentile rank which indicates high affinity is considered.
Id | Allele | Start Position | End Position | Length | Peptide | Score | Percentile Rank |
|---|---|---|---|---|---|---|---|
Major Histocompatibility Complex (MHC) class I and MHC class II binders are also known as a distinctive class of epitopes or T cell epitopes were analyzed for potential vaccine design. For binding predictions, the IEDB Analysis Resource Consensus tool was used.
For predicting MHC-II binders, the IEDB recommended consensus method (NN-align, SMM-align, CombLib and Sturniolo) was chosen. The rank threshold was selected as 0.4 to get high-affinity binders in the output table.
Id | Allele | Start Position | End Position | Length | Method Used | Core | Adjusted Rank |
|---|---|---|---|---|---|---|---|