Analysis of associations between cancer driver mutations and PPI neighbours

Data files necessary to run the analysis of associations between cancer driver mutation status and its protein physical interactors.

Code for the analysis is available at: https://github.com/GamaPintoLab/driver_neighbours

The raw data files were retrieved from the TCGA Pan Cancer cohort through the UCSC Xena online tool (https://pancanatlas.xenahubs.net):

1- gene expression data  https://tcga-pancan-atlas-hub.s3.us-east-1.amazonaws.com/download/EB%2B%2BAdjustPANCAN_IlluminaHiSeq_RNASeqV2.geneExp.xena.gz2- mutation data https://tcga-pancan-atlas-hub.s3.us-east-1.amazonaws.com/download/mc3.v0.2.8.PUBLIC.nonsilentGene.xena.gz3- clinical data https://tcga-pancan-atlas-hub.s3.us-east-1.amazonaws.com/download/Survival_SupplementalTable_S1_20171025_xena_sp4- disease and sample type data https://tcga-pancan-atlas-hub.s3.us-east-1.amazonaws.com/download/TCGA_phenotype_denseDataOnlyDownload.tsv.gz

Cancer driver genes included in the study were collected from http://network-cancer-genes.org/