In this tutorial, we’ll guide you through steps and workflows to address your questions related to interpreting proteomics and phosphoproteomics datasets using QIAGEN IPA, such as:
• How should I format the data before uploading to IPA?
• How do I set up the analysis?
• Which upstream kinases are implicated in the observed phosphoproteomics changes?
• What are the targets of a particular upstream kinase and how do their levels of phosphorylation change over the time course?
• What are the targets on a particular Canonical Pathway and how do their levels of phosphorylation change over time?
• Which biological predictions trend in a time-dependent manner during the time course?
• How do the biological predictions from phosphoproteomics compare with a related transcriptomics dataset?