The data in this Zenodo entry corresponds to the data and results associated with the manuscript titled Cardiopulmonary bypass with deep hypothermic circulatory arrest results in organ-specific transcriptomic responses in pediatric swine and the accompying code base . The zipped folder contains the following file structure roughly broken down into two main parts; Data (files needed to run the code) and Results (files generated by the code) Data mapped_reads : genrated by nf-core pipeline that is used in the analyses networks : data used to generate network clusters orthologs: data used to convert swine genes to human genes Sample info + gender with heart.csv : sample sheet describing labels of the samples Results Make_DEG_Lists : results generated for the entire gene list (includes results for only looking at all up- or all down-regulated genes, which aren't included in the main manuscript) Make_Cluster : results of the network clustering analysis (includes results for only looking at all up- or all down-regulated genes, which aren't included in the main manuscript) nfcore_count_tables : count tables generated by the rnaseq pipeline run using nf-core Note: the names of the groups in these files are slightly different than in the manuscript Controlnodrug = Control CPBnodrug = CPB/DHCA CPBLind = CPB/DHCA + Lin (Linrodostat analyses ended up not included in the published version of the manuscript) This study was funded by the National Institutes of Health/NHLBI R01HL156936