I have a lists of genes for human and mouse. For the human gene list, I previously used REACTOME (https://reactome.org/) for pathway analysis. However, as this tool is only available for human, I later have a license to use Ingenuity Pathway Analysis (IPA) to do pathway analysis for mouse data. Before working on the mouse gene list, I re-ran the human gene list with IPA to check if the two tools provide consistent result and turns out they do not, even very different. Do you know the reason for this result? Which tool is better?
Thank you very much