Supplementary files

1.GSE30219, which is related to the GPL570 platform and was deposited in 2011, comprised of 293 lung tumor samples and 14 non-tumoral lung samples.2. GSE74706, which is related to the GPL13497 platform and was deposited in 2015, comprised of matching pairs of tumor-free lung and NSCLC specimen..3. Data Acquisition (TCGA+GTEx): RNA-seq data in TPM format from TCGA and GTEx, uniformly processed through the Toil pipeline (Vivian J et al., 2017), were obtained from UCSC Xena (xenabrowser.net/datapages/).

Pan-cancer data from TCGA and matched normal tissue data from GTEx were extracted for analysis.Reference: Vivian, J., Rao, A. A., Nothaft, F. A., et al. (2017). Toil enables reproducible, open source, big biomedical data analyses Nature Biotechnology, 35(4), 314-316.