IEDB Prediction IEDB Pred II Track Settings
 
IEDB Epitope Predictions, Human T-Cell Class II

Track collection: Immune Epitope Database and Analysis Resource (IEDB) HLA binding predictions

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Data schema/format description and download
Assembly: Ebola virus Sierra Leone 2014 (G3683/KM034562.1/eboVir3)
Data last updated at UCSC: 2014-12-04 06:47:49

Description

This track shows peptides that are predicted to be displayed by human class II MHCs.

Display Conventions and Configuration

Peptides are shaded by percentile.

Methods

For human epitope predictions, 15-mer peptides overlapping by 10 aa residues were generated from aligned sequences, to avoid redundant peptides that share the same 9-mer binding core. For each 15-mer peptide, the binding affinity was predicted (expressed as the IEDB consensus percentile rank) for seven class II human HLA alleles (HLA-DRB1*03:01, HLA-DRB1*07:01, HLA-DRB1*15:01, HLA-DRB3*01:01, HLA-DRB3*02:02, HLADRB4*01:01 and HLA-DRB5*01:01), using the MHC class I binding prediction tool ("IEDB recommended" method). Predicted binders were selected based on the median consensus percentile rank estimated from the consensus percentile ranks for the seven alleles. All peptides with median consensus percentile rank <= 20.0 were selected as predicted binders, the threshold being previously optimized for capturing 50% of class II human T cell responses.