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/本数据集包含用于开展癌症驱动突变状态与其蛋白质物理互作因子间关联分析的全部必要数据文件。 本分析的配套代码已公开于：https://github.com/GamaPintoLab/driver_neighbours 原始数据均通过UCSC Xena在线工具（https://pancanatlas.xenahubs.net）从TCGA泛癌症队列中获取： 1. 基因表达数据：https://tcga-pancan-atlas-hub.s3.us-east-1.amazonaws.com/download/EB%2B%2BAdjustPANCAN_IlluminaHiSeq_RNASeqV2.geneExp.xena.gz 2. 突变数据：https://tcga-pancan-atlas-hub.s3.us-east-1.amazonaws.com/download/mc3.v0.2.8.PUBLIC.nonsilentGene.xena.gz 3. 临床数据：https://tcga-pancan-atlas-hub.s3.us-east-1.amazonaws.com/download/Survival_SupplementalTable_S1_20171025_xena_sp 4. 疾病与样本类型数据：https://tcga-pancan-atlas-hub.s3.us-east-1.amazonaws.com/download/TCGA_phenotype_denseDataOnlyDownload.tsv.gz 本研究纳入的癌症驱动基因集合采集自http://network-cancer-genes.org/