Gene and protein sequence features augment HLA class I ligand predictions

Dataset and analyses supporting the manuscript "Gene and protein sequence features augment HLA class I ligand predictions".

The "peptides" files contain the mass-spec detected peptides obtained from HLA ligandomics performed on the indicated tumor lines. 

The "protein data" files contain the RNAseq data (TPM) and Ribosome profiling data (ribosome occupancy) per protein, for each tumor line. 

The "source data" zip archive contains the source data underlying the figures of the manuscript.

The "HLA ligandome analyses" zip archive contains the R scripts used for all data analysis in the manuscript, including all data and output files. These analyses can also be found at https://github.com/kasbress/HLA_Ligandome_Analyses/