MHC-I Download

Scoring matrices of SMM and SMMPMBEC - Download

To download the dataset in tar.gz format:

Dataset used for retraining the IEDB class I binding prediction tools.

Description of the dataset: The dataset is largely identical to that of Kim et al (2014), described above, but includes additional data that was not publicly available at the time.
Date of the dataset generation: 2013
Details on the dataset generation: The dataset was compiled from three sources: the IEDB, the Sette lab, and the Buus lab. If a peptide/allele combination had more than 1 measurement among the three sources, its geometric mean was taken.
Data format: Compressed text file containing binding data.
Dataset availability: binding_data_2013.zip

Dataset used for training and testing of the NetMHCpan-4.1 method

Dataset availability: https://services.healthtech.dtu.dk/suppl/immunology/NAR_NetMHCpan_NetMHCIIpan/

Dataset used for training and testing of the NetMHCpan-4.0 method

Description of the dataset: The training binding data are partitioned in 5 files to be used for cross-validation. For instance do the f000_ba and f000_el files contain the binding affinity and eluted ligand training data, and the c000_ba and c000_el files the binding affinity and eluted ligand test data for the first cross-validation partitioning. It is critical that this data partitioning is maintained.
Note that the BA data - binding affinity - are identical to the ones used for training of NetMHC-4.0 and NetMHCpan-3.0.
Dataset availability: https://services.healthtech.dtu.dk/immunology/NetMHCpan-4.0/

MHC-I binding predictions - Download

The MHC_I binding tool contains a collection of following peptide binding prediction methods for Major Histocompatibility Complex (MHC) class I molecules.The collection is a mixture of pythons scripts and linux 32-bit environment specific binaries.

ann
smm
smmpmbec
comblib_sidney2008
consensus
netmhcpan
pickpocket
netmhccons

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