Transcriptome profiling was performed using total RNA extracted from a total of 1,340 dissected tissue samples (RNA integrity number [RIN], 8.83±0.93 [mean±SD]; Supplementary Tables 3 and 4). We used the Affymetrix GeneChip Human Exon 1.0 ST Array platform, which features comprehensive coverage of the human genome, with 1.4 million probe sets that assay expression across the entire transcript or individual exon, thereby providing redundancy and increasing confidence in estimates of gene-level differential expression (DEX) and differential exon usage (DEU). Descriptions of tissue sampling and quality control measures implemented throughout transcriptome data generation steps are provided in Supplementary Information 2-5 and Supplementary Figures 5-8.
