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 42 42 42
NetMHCpan 3.0 70 65 74
NetMHCpan 4.0 78 74 82
SMM 39 39 38
ANN 3.4 54 51 58
ANN 4.0 91 93 89
ARB 26 18 33
SMMPMBEC 35 35 35
IEDB Consensus 51 49 52
NetMHCcons 59 50 69
PickPocket 23 18 29
mhcflurry 1.2.0 80 85 74
DeepSeqPa 21 22 19

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
 1033071   HLA-A*02:01   9   113   41   ic50   0.809   0.873   0.816   0.876   0.812   0.876   0.802   0.866   0.803   0.873   0.822   0.876   0.787   0.850   0.804   0.866   0.809   0.868   0.808   0.874   0.776   0.852   0.821   0.872   -   - 
 1033071   HLA-A*02:01   10   77   12   ic50   0.833   0.881   0.856   0.891   0.857   0.899   0.832   0.881   0.848   0.915   0.866   0.896   0.801   0.856   0.831   0.883   0.858   0.888   0.838   0.888   0.826   0.878   0.834   0.901   -   - 
 1033576   HLA-A*02:01   9   191   13   binary   0.112   0.628   0.116   0.633   0.113   0.630   0.112   0.632   0.121   0.638   0.147   0.668   0.063   0.573   0.110   0.626   0.130   0.678   0.109   0.652   0.125   0.670   0.123   0.641   0.097   0.611 
 1031072   HLA-A*02:01   9   28   23   ic50   0.802   0.983   0.852   0.991   0.875   1.000   0.862   0.991   0.841   0.983   0.887   1.000   0.847   1.000   0.861   0.991   0.828   0.991   0.837   0.991   0.799   0.974   0.888   1.000   0.824   0.957 
 1031072   HLA-A*02:01   10   16   13   ic50   0.850   0.949   0.835   0.923   0.879   0.949   0.718   0.872   0.756   0.872   0.841   0.923   0.609   0.692   0.709   0.872   0.805   0.872   0.771   0.872   0.712   0.821   0.691   0.821   -   - 
 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   -   -   -   -