This is a supplementary dataset with raw data, scripts, and complete analysis results for the paper "Supervised projection of high-dimensional genome-wide expression on SOM transcriptome landscapes". The archive contains three folders: 1. "Simdata" folder contains data, scripts, and results of performance evaluation of extension SOM and supervised SOM with simulated data. 2. "IBD" - folder contains data, scripts, and results of analysis of Inflammatory bowel disease datasets. 3. "BC" - folder contains data, scripts, and results of analysis of breast cancer datasets.