IEDB Analysis Resource

MHCI Weekly Benchmark results


Overall scores

Overall scores based on data sets submitted to the IED for the last at least 5 references. The overall scores in the SRCC and AUC columns are calculated using performance values for only SRCC or AUC respectively. In the overall column, both evaluation types are used.

Server Overall SRCC AUC
NetMHCpan 2.8 60 61 60
NetMHCpan 3.0 58 50 65
NetMHCpan 4.0 74 73 74
SMM 32 26 39
ANN 3.4 78 79 77
ANN 4.0 78 68 89
ARB 0 0 0
SMMPMBEC 29 28 31
IEDB Consensus 48 46 50
NetMHCcons 84 84 84
PickPocket 25 19 32
mhcflurry 1.2.0 71 100 42
DeepSeqPa 73 71 75

Data set specific results

Detailed information for the evaluated data sets used in the calculation of the overall scores in the table above. Predictions from each participating server for the data sets listed below may be downloaded here

Datasets displayed in gray showed poor performance across all of the available predictors and are excluded from the overall ranking, pending further analysis.


IEDB
Reference
Allele Peptide
Length
Peptide
Count
Positive
Count
Measurement
type
NetMHCpan 2.8 NetMHCpan 3.0 NetMHCpan 4.0 SMM ANN 3.4 ANN 4.0 ARB SMMPMBEC IEDB Consensus NetMHCcons PickPocket mhcflurry 1.2.0 DeepSeqPa
SRCC AUC SRCC AUC SRCC AUC SRCC AUC SRCC AUC SRCC AUC SRCC AUC SRCC AUC SRCC AUC SRCC AUC SRCC AUC SRCC AUC SRCC AUC
 1031894   HLA-A*02:01   9   434   368   ic50   0.719   0.878   0.739   0.898   0.743   0.901   0.650   0.819   0.717   0.882   0.719   0.880   0.538   0.766   0.653   0.824   0.645   0.818   0.729   0.884   0.567   0.787   0.749   0.863   0.703   0.872 
 1034610   HLA-B*53:01   10   12   8   ic50   0.901   0.889   0.857   0.944   0.860   0.938   0.780   0.833   0.874   0.889   1.000   1.000   -   -   0.698   0.778   0.834   0.861   0.934   0.889   0.828   0.889   -   -   -   - 
 1034799   H-2-Db   9   46   42   ic50   0.676   0.940   0.729   0.952   0.718   0.946   0.617   0.893   0.738   0.988   0.715   0.964   -   -   0.649   0.917   0.644   0.935   0.732   0.958   0.497   0.810   -   -   -   - 
 1034799   H-2-Kb   8   34   31   ic50   0.663   0.914   0.632   0.903   0.638   0.882   0.631   0.903   0.672   0.903   0.644   0.925   -   -   0.616   0.871   0.649   0.914   0.666   0.914   0.512   0.806   -   -   -   - 
 315301   HLA-B*39:09   9   17   10   binary   0.854   1.000   0.781   0.957   0.854   1.000   -   -   -   -   -   -   -   -   -   -   -   -   0.854   1.000   0.805   0.971   -   -   -   - 
 1034596   HLA-A*02:01   9   10   8   binary   0.000   0.500   0.087   0.562   0.087   0.562   0.087   0.562   0.087   0.562   0.087   0.562   -   -   0.087   0.562   0.088   0.562   0.087   0.562   0.087   0.562   -   -   0.435   0.812