Data availabilityThe analyses described in this work use sequencing and proteomic data from previously published datasets deposited in public data repositories. CPTAC raw MS proteomic data were downloaded from the CPTAC Data Portal with the following PDC study IDs: PDC000120 (BRCA), PDC000127 (CCRCC), PDC000234 (LSCC), PDC000153 (LUAD), PDC000270 (PDAC) and PDC000125 (UCEC). CPTAC genomic and transcriptomic sequencing reads were accessed through the GDC Data Portal with the following dbGaP study accessions: phs000892 (CPTAC-2) and phs001287 (CPTAC-3). Whole exome sequencing data from the following PDC studies were analysed: PDC000127, PDC000446, PDC000204, PDC000221, PDC000234, PDC000153, PDC000489, PDC000270, PDC000393, PDC000125, PDC000439, and PDC000464. Access to controlled data was granted after application to NCBI (project no. 24007: Investigation of Mistranslation Rates in Cancer). RNA-seq data for healthy human tissues17 were downloaded from ArrayExpress with the identifier E-MTAB-2836, and corresponding raw MS data were downloaded from PRIDE with project accession PXD010154. Mouse transcriptome sequence data were downloaded from ArrayExpress under the identifier E-MTAB-10276. The mouse MS proteomic data were downloaded from PRIDE with the dataset identifier PXD030983. Primary cell MS data were downloaded from PRIDE with the following accession numbers: PXD008511 (B cells), PXD008512 (hepatocytes), PXD008513 (monocytes) and PXD008515 (natural killer cells). Immunoprecipitation–MS proteomic data were downloaded from MassIVE with accession MSV000088555. Supporting information, data and documentation are available at decode.slavovlab.net.Code availabilitySoftware, data-analysis pipelines and other supporting documentation are available at decode.slavovlab.net. The code for reproducing all the analyses and figures presented is freely available at GitHub (github.com/SlavovLab/decode).ReferencesCantwell-Dorris, E. R., O’Leary, J. J. & Sheils, O. M. BRAFV600E: implications for carcinogenesis and molecular therapy. Mol. Cancer Ther. 10, 385–394 (2011).Article